-- dump date 20120504_160152 -- class Genbank::misc_feature -- table misc_feature_note -- id note 395492000001 Domain of unknown function (DUF303); Region: DUF303; pfam03629 395492000002 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 395492000003 phosphopeptide binding site; other site 395492000004 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 395492000005 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 395492000006 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cl00062 395492000007 phosphopeptide binding site; other site 395492000008 Type II/IV secretion system protein; Region: T2SE; pfam00437 395492000009 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 395492000010 ATP binding site [chemical binding]; other site 395492000011 Walker A motif; other site 395492000012 hexamer interface [polypeptide binding]; other site 395492000013 Walker B motif; other site 395492000014 SAF domain; Region: SAF; cl00555 395492000015 SAF domain; Region: SAF; cl00555 395492000016 TadE-like protein; Region: TadE; cl10688 395492000017 TadE-like protein; Region: TadE; cl10688 395492000018 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 395492000019 Type II/IV secretion system protein; Region: T2SE; pfam00437 395492000020 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 395492000021 ATP binding site [chemical binding]; other site 395492000022 Walker A motif; other site 395492000023 hexamer interface [polypeptide binding]; other site 395492000024 Walker B motif; other site 395492000025 RNA ligase; Region: RNA_lig_T4_1; cl09743 395492000026 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 395492000027 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 395492000028 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 395492000029 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 395492000030 Sarcosine oxidase, delta subunit family; Region: SoxD; cl01767 395492000031 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 395492000032 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492000033 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 395492000034 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 395492000035 conserved cys residue [active] 395492000036 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395492000037 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 395492000038 non-specific DNA binding site [nucleotide binding]; other site 395492000039 salt bridge; other site 395492000040 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional; Region: PRK08099 395492000041 sequence-specific DNA binding site [nucleotide binding]; other site 395492000042 Cupin domain; Region: Cupin_2; cl09118 395492000043 Glutamate synthase domain 1 [Amino acid transport and metabolism]; Region: GltB; COG0067 395492000044 Glutamine amidotransferases class-II (Gn-AT)_GlxB-type. GlxB is a glutamine amidotransferase-like protein of unknown function found in bacteria and archaea. GlxB has a structural fold similar to that of other class II glutamine amidotransferases...; Region: GlxB; cd01907 395492000045 putative active site [active] 395492000046 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cd00504 395492000047 domain_subunit interface; other site 395492000048 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 395492000049 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 395492000050 active site 395492000051 FMN binding site [chemical binding]; other site 395492000052 substrate binding site [chemical binding]; other site 395492000053 3Fe-4S cluster binding site [ion binding]; other site 395492000054 glutamine synthetase, type III; Region: gln_synth_III; TIGR03105 395492000055 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 395492000056 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 395492000057 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 395492000058 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 395492000059 putative active site [active] 395492000060 putative substrate binding site [chemical binding]; other site 395492000061 putative cosubstrate binding site; other site 395492000062 catalytic site [active] 395492000063 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 395492000064 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 395492000065 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 395492000066 homodimer interface [polypeptide binding]; other site 395492000067 NADP binding site [chemical binding]; other site 395492000068 substrate binding site [chemical binding]; other site 395492000069 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 395492000070 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 395492000071 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 395492000072 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 395492000073 FMN-binding pocket [chemical binding]; other site 395492000074 flavin binding motif; other site 395492000075 phosphate binding motif [ion binding]; other site 395492000076 beta-alpha-beta structure motif; other site 395492000077 NAD binding pocket [chemical binding]; other site 395492000078 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 395492000079 catalytic loop [active] 395492000080 iron binding site [ion binding]; other site 395492000081 Protein of unknown function (DUF3445); Region: DUF3445; pfam11927 395492000082 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 395492000083 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492000084 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395492000085 PAS fold; Region: PAS_3; pfam08447 395492000086 putative active site [active] 395492000087 heme pocket [chemical binding]; other site 395492000088 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395492000089 putative CheW interface [polypeptide binding]; other site 395492000090 septum formation inhibitor; Reviewed; Region: minC; PRK05177 395492000091 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 395492000092 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 395492000093 Switch I; other site 395492000094 Switch II; other site 395492000095 Septum formation topological specificity factor MinE; Region: MinE; cl00538 395492000096 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 395492000097 DNA-binding site [nucleotide binding]; DNA binding site 395492000098 RNA-binding motif; other site 395492000099 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 395492000100 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 395492000101 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 395492000102 Amino acid permease; Region: AA_permease_2; pfam13520 395492000103 Amino acid permease; Region: AA_permease_2; pfam13520 395492000104 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 395492000105 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 395492000106 active site 395492000107 catalytic tetrad [active] 395492000108 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 395492000109 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492000110 DNA polymerase III subunit epsilon; Validated; Region: PRK09182 395492000111 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 395492000112 active site 395492000113 catalytic site [active] 395492000114 substrate binding site [chemical binding]; other site 395492000115 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 395492000116 KduI/IolB family; Region: KduI; cl01508 395492000117 2-deoxy-D-gluconate 3-dehydrogenase; Region: kduD; TIGR01832 395492000118 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 395492000119 NADP binding site [chemical binding]; other site 395492000120 homodimer interface [polypeptide binding]; other site 395492000121 active site 395492000122 Transcriptional regulators [Transcription]; Region: FadR; COG2186 395492000123 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395492000124 DNA-binding site [nucleotide binding]; DNA binding site 395492000125 FCD domain; Region: FCD; cl11656 395492000126 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 395492000127 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 395492000128 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 395492000129 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395492000130 putative substrate translocation pore; other site 395492000131 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395492000132 flagellin; Reviewed; Region: PRK12687 395492000133 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 395492000134 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 395492000135 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 395492000136 The substrate binding domain of a cellulose-binding protein from Thermotoga maritima contains the type 2 periplasmic binding fold; Region: PBP2_TmCBP_oligosaccharides_like; cd08509 395492000137 substrate binding site [chemical binding]; other site 395492000138 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 395492000139 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492000140 dimer interface [polypeptide binding]; other site 395492000141 conserved gate region; other site 395492000142 putative PBP binding loops; other site 395492000143 ABC-ATPase subunit interface; other site 395492000144 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492000145 dimer interface [polypeptide binding]; other site 395492000146 conserved gate region; other site 395492000147 putative PBP binding loops; other site 395492000148 ABC-ATPase subunit interface; other site 395492000149 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 395492000150 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395492000151 Walker A/P-loop; other site 395492000152 ATP binding site [chemical binding]; other site 395492000153 Q-loop/lid; other site 395492000154 ABC transporter signature motif; other site 395492000155 Walker B; other site 395492000156 D-loop; other site 395492000157 H-loop/switch region; other site 395492000158 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395492000159 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395492000160 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 395492000161 Walker A/P-loop; other site 395492000162 ATP binding site [chemical binding]; other site 395492000163 Q-loop/lid; other site 395492000164 ABC transporter signature motif; other site 395492000165 Walker B; other site 395492000166 D-loop; other site 395492000167 H-loop/switch region; other site 395492000168 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395492000169 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 395492000170 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 395492000171 active site 395492000172 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 395492000173 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 395492000174 Methyltransferase domain; Region: Methyltransf_31; pfam13847 395492000175 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 395492000176 S-adenosylmethionine binding site [chemical binding]; other site 395492000177 Helix-turn-helix domains; Region: HTH; cl00088 395492000178 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 395492000179 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 395492000180 sugar efflux transporter; Region: 2A0120; TIGR00899 395492000181 classical (c) SDRs; Region: SDR_c; cd05233 395492000182 NAD(P) binding site [chemical binding]; other site 395492000183 active site 395492000184 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 395492000185 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 395492000186 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 395492000187 putative active site [active] 395492000188 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 395492000189 homotrimer interaction site [polypeptide binding]; other site 395492000190 putative active site [active] 395492000191 Uncharacterized conserved protein [Function unknown]; Region: COG5476 395492000192 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 395492000193 MlrC C-terminus; Region: MlrC_C; pfam07171 395492000194 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 395492000195 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Low Specificity D-Threonine Aldolase-like; Region: PLPDE_III_LS_D-TA_like; cd06820 395492000196 dimer interface [polypeptide binding]; other site 395492000197 active site 395492000198 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 395492000199 substrate binding site [chemical binding]; other site 395492000200 catalytic residue [active] 395492000201 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 395492000202 Walker A motif; other site 395492000203 ATP binding site [chemical binding]; other site 395492000204 Walker B motif; other site 395492000205 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395492000206 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395492000207 Walker A/P-loop; other site 395492000208 ATP binding site [chemical binding]; other site 395492000209 Q-loop/lid; other site 395492000210 ABC transporter signature motif; other site 395492000211 Walker B; other site 395492000212 D-loop; other site 395492000213 H-loop/switch region; other site 395492000214 TOBE domain; Region: TOBE_2; cl01440 395492000215 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395492000216 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492000217 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395492000218 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492000219 dimer interface [polypeptide binding]; other site 395492000220 conserved gate region; other site 395492000221 ABC-ATPase subunit interface; other site 395492000222 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 395492000223 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492000224 dimer interface [polypeptide binding]; other site 395492000225 conserved gate region; other site 395492000226 putative PBP binding loops; other site 395492000227 ABC-ATPase subunit interface; other site 395492000228 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395492000229 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492000230 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 395492000231 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 395492000232 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 395492000233 Periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family; Region: PBP1_AmiC; cd06357 395492000234 ligand binding site [chemical binding]; other site 395492000235 regulator interaction site; other site 395492000236 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 395492000237 ANTAR domain; Region: ANTAR; cl04297 395492000238 Predicted amidohydrolase [General function prediction only]; Region: COG0388 395492000239 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_2; cd07580 395492000240 putative active site [active] 395492000241 catalytic triad [active] 395492000242 putative dimer interface [polypeptide binding]; other site 395492000243 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 395492000244 Type I periplasmic-binding protein of the nitrile hydratase (NHase) system that selectively converts nitriles to corresponding amides; Region: PBP1_NHase; cd06358 395492000245 putative ligand binding site [chemical binding]; other site 395492000246 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 395492000247 TM-ABC transporter signature motif; other site 395492000248 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 395492000249 TM-ABC transporter signature motif; other site 395492000250 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 395492000251 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 395492000252 Walker A/P-loop; other site 395492000253 ATP binding site [chemical binding]; other site 395492000254 Q-loop/lid; other site 395492000255 ABC transporter signature motif; other site 395492000256 Walker B; other site 395492000257 D-loop; other site 395492000258 H-loop/switch region; other site 395492000259 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 395492000260 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 395492000261 Walker A/P-loop; other site 395492000262 ATP binding site [chemical binding]; other site 395492000263 Q-loop/lid; other site 395492000264 ABC transporter signature motif; other site 395492000265 Walker B; other site 395492000266 D-loop; other site 395492000267 H-loop/switch region; other site 395492000268 Amidase; Region: Amidase; cl11426 395492000269 Protein of unknown function, DUF606; Region: DUF606; cl01273 395492000270 Protein of unknown function, DUF606; Region: DUF606; cl01273 395492000271 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 395492000272 transmembrane helices; other site 395492000273 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 395492000274 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 395492000275 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 395492000276 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 395492000277 DNA polymerase Ligase (LigD); Region: LigD_N; cl11819 395492000278 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 395492000279 active site 395492000280 DNA binding site [nucleotide binding] 395492000281 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 395492000282 DNA binding site [nucleotide binding] 395492000283 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 395492000284 nucleotide binding site [chemical binding]; other site 395492000285 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 395492000286 Periplasmic binding protein TroA_e. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_e; cd01142 395492000287 putative ligand binding residues [chemical binding]; other site 395492000288 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 395492000289 ABC-ATPase subunit interface; other site 395492000290 dimer interface [polypeptide binding]; other site 395492000291 putative PBP binding regions; other site 395492000292 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 395492000293 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 395492000294 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 395492000295 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492000296 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492000297 Transcriptional regulators [Transcription]; Region: FadR; COG2186 395492000298 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395492000299 DNA-binding site [nucleotide binding]; DNA binding site 395492000300 FCD domain; Region: FCD; cl11656 395492000301 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395492000302 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 395492000303 putative NAD(P) binding site [chemical binding]; other site 395492000304 active site 395492000305 putative substrate binding site [chemical binding]; other site 395492000306 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395492000307 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395492000308 Walker A/P-loop; other site 395492000309 ATP binding site [chemical binding]; other site 395492000310 Q-loop/lid; other site 395492000311 ABC transporter signature motif; other site 395492000312 Walker B; other site 395492000313 D-loop; other site 395492000314 H-loop/switch region; other site 395492000315 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 395492000316 TOBE domain; Region: TOBE_2; cl01440 395492000317 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395492000318 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492000319 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 395492000320 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492000321 dimer interface [polypeptide binding]; other site 395492000322 conserved gate region; other site 395492000323 putative PBP binding loops; other site 395492000324 ABC-ATPase subunit interface; other site 395492000325 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395492000326 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492000327 dimer interface [polypeptide binding]; other site 395492000328 conserved gate region; other site 395492000329 putative PBP binding loops; other site 395492000330 ABC-ATPase subunit interface; other site 395492000331 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 395492000332 putative catalytic residues [active] 395492000333 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 395492000334 Helix-turn-helix domains; Region: HTH; cl00088 395492000335 YjgH belongs to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgH_like; cd02198 395492000336 homotrimer interaction site [polypeptide binding]; other site 395492000337 putative active site [active] 395492000338 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 395492000339 nudix motif; other site 395492000340 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 395492000341 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 395492000342 Plant ATP synthase F0; Region: YMF19; cl07975 395492000343 benzoate transport; Region: 2A0115; TIGR00895 395492000344 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395492000345 putative substrate translocation pore; other site 395492000346 Helix-turn-helix domains; Region: HTH; cl00088 395492000347 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 395492000348 Flavin Reductases; Region: FlaRed; cl00801 395492000349 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 395492000350 Naphthocyclinone hydroxylase; Region: NcnH; cd01159 395492000351 Flavin binding site [chemical binding]; other site 395492000352 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 395492000353 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 395492000354 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 395492000355 active site 395492000356 dimer interface [polypeptide binding]; other site 395492000357 metal binding site [ion binding]; metal-binding site 395492000358 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 395492000359 chlorocatechol 1,2-dioxygenase; Region: chlorocat_1_2; TIGR02465 395492000360 active site 395492000361 YCII-related domain; Region: YCII; cl00999 395492000362 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 395492000363 DNA polymerase LigD, ligase domain; Region: NHEJ_ligase_lig; TIGR02779 395492000364 active site 395492000365 DNA binding site [nucleotide binding] 395492000366 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 395492000367 DNA binding site [nucleotide binding] 395492000368 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395492000369 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395492000370 putative substrate translocation pore; other site 395492000371 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395492000372 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395492000373 putative substrate translocation pore; other site 395492000374 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 395492000375 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 395492000376 TM-ABC transporter signature motif; other site 395492000377 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 395492000378 TM-ABC transporter signature motif; other site 395492000379 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 395492000380 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 395492000381 Walker A/P-loop; other site 395492000382 ATP binding site [chemical binding]; other site 395492000383 Q-loop/lid; other site 395492000384 ABC transporter signature motif; other site 395492000385 Walker B; other site 395492000386 D-loop; other site 395492000387 H-loop/switch region; other site 395492000388 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 395492000389 Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily; Region: PBP1_ABC_sugar_binding_like_1; cd06300 395492000390 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 395492000391 putative ligand binding site [chemical binding]; other site 395492000392 GAF domain; Region: GAF; cl15785 395492000393 Histidine kinase; Region: HisKA_3; pfam07730 395492000394 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 395492000395 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 395492000396 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492000397 active site 395492000398 phosphorylation site [posttranslational modification] 395492000399 intermolecular recognition site; other site 395492000400 dimerization interface [polypeptide binding]; other site 395492000401 Helix-turn-helix domains; Region: HTH; cl00088 395492000402 DNA binding residues [nucleotide binding] 395492000403 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 395492000404 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 395492000405 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395492000406 metal binding site [ion binding]; metal-binding site 395492000407 active site 395492000408 I-site; other site 395492000409 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 395492000410 Domain of Unknown Function (DUF1206); Region: DUF1206; pfam06724 395492000411 Domain of Unknown Function (DUF1206); Region: DUF1206; pfam06724 395492000412 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395492000413 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395492000414 DNA binding site [nucleotide binding] 395492000415 domain linker motif; other site 395492000416 Ligand-binding domain of DNA-binding regulatory proteins specific to sucrose that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_sucrose_transcription_regulator; cd06288 395492000417 putative dimerization interface [polypeptide binding]; other site 395492000418 putative ligand binding site [chemical binding]; other site 395492000419 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492000420 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 395492000421 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492000422 dimer interface [polypeptide binding]; other site 395492000423 conserved gate region; other site 395492000424 putative PBP binding loops; other site 395492000425 ABC-ATPase subunit interface; other site 395492000426 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395492000427 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492000428 dimer interface [polypeptide binding]; other site 395492000429 conserved gate region; other site 395492000430 putative PBP binding loops; other site 395492000431 ABC-ATPase subunit interface; other site 395492000432 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395492000433 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395492000434 Walker A/P-loop; other site 395492000435 ATP binding site [chemical binding]; other site 395492000436 Q-loop/lid; other site 395492000437 ABC transporter signature motif; other site 395492000438 Walker B; other site 395492000439 D-loop; other site 395492000440 H-loop/switch region; other site 395492000441 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 395492000442 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 395492000443 substrate binding [chemical binding]; other site 395492000444 active site 395492000445 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 395492000446 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 395492000447 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 395492000448 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 395492000449 Aspartase; Region: Aspartase; cd01357 395492000450 active sites [active] 395492000451 tetramer interface [polypeptide binding]; other site 395492000452 L-asparaginase II; Region: Asparaginase_II; cl01842 395492000453 L-asparagine permease; Provisional; Region: PRK15049 395492000454 Transcriptional regulators [Transcription]; Region: FadR; COG2186 395492000455 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395492000456 DNA-binding site [nucleotide binding]; DNA binding site 395492000457 FCD domain; Region: FCD; cl11656 395492000458 Transcriptional regulators [Transcription]; Region: FadR; COG2186 395492000459 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395492000460 DNA-binding site [nucleotide binding]; DNA binding site 395492000461 FCD domain; Region: FCD; cl11656 395492000462 hypothetical protein; Provisional; Region: PRK11171 395492000463 Cupin domain; Region: Cupin_2; cl09118 395492000464 Cupin domain; Region: Cupin_2; cl09118 395492000465 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 395492000466 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395492000467 Walker A/P-loop; other site 395492000468 ATP binding site [chemical binding]; other site 395492000469 Q-loop/lid; other site 395492000470 ABC transporter signature motif; other site 395492000471 Walker B; other site 395492000472 D-loop; other site 395492000473 H-loop/switch region; other site 395492000474 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395492000475 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395492000476 Walker A/P-loop; other site 395492000477 ATP binding site [chemical binding]; other site 395492000478 Q-loop/lid; other site 395492000479 ABC transporter signature motif; other site 395492000480 Walker B; other site 395492000481 D-loop; other site 395492000482 H-loop/switch region; other site 395492000483 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395492000484 seryl-tRNA(sec) selenium transferase; Region: selA; TIGR00474 395492000485 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 395492000486 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395492000487 catalytic residue [active] 395492000488 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 395492000489 homotrimer interaction site [polypeptide binding]; other site 395492000490 putative active site [active] 395492000491 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 395492000492 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492000493 dimer interface [polypeptide binding]; other site 395492000494 conserved gate region; other site 395492000495 putative PBP binding loops; other site 395492000496 ABC-ATPase subunit interface; other site 395492000497 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 395492000498 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492000499 dimer interface [polypeptide binding]; other site 395492000500 conserved gate region; other site 395492000501 putative PBP binding loops; other site 395492000502 ABC-ATPase subunit interface; other site 395492000503 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 395492000504 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_16; cd08502 395492000505 Protein of unknown function (DUF1349); Region: DUF1349; cl01397 395492000506 haemagglutination activity domain; Region: Haemagg_act; cl05436 395492000507 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 395492000508 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 395492000509 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 395492000510 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 395492000511 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 395492000512 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 395492000513 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 395492000514 Surface antigen; Region: Bac_surface_Ag; cl03097 395492000515 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 395492000516 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 395492000517 substrate binding site [chemical binding]; other site 395492000518 multimerization interface [polypeptide binding]; other site 395492000519 ATP binding site [chemical binding]; other site 395492000520 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 395492000521 thiamine phosphate binding site [chemical binding]; other site 395492000522 active site 395492000523 pyrophosphate binding site [ion binding]; other site 395492000524 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 395492000525 dimer interface [polypeptide binding]; other site 395492000526 substrate binding site [chemical binding]; other site 395492000527 ATP binding site [chemical binding]; other site 395492000528 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395492000529 Coenzyme A binding pocket [chemical binding]; other site 395492000530 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 395492000531 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 395492000532 The substrate binding domain of a cellulose-binding protein from Thermotoga maritima contains the type 2 periplasmic binding fold; Region: PBP2_TmCBP_oligosaccharides_like; cd08509 395492000533 substrate binding site [chemical binding]; other site 395492000534 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 395492000535 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492000536 dimer interface [polypeptide binding]; other site 395492000537 conserved gate region; other site 395492000538 putative PBP binding loops; other site 395492000539 ABC-ATPase subunit interface; other site 395492000540 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 395492000541 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492000542 dimer interface [polypeptide binding]; other site 395492000543 conserved gate region; other site 395492000544 putative PBP binding loops; other site 395492000545 ABC-ATPase subunit interface; other site 395492000546 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 395492000547 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395492000548 Walker A/P-loop; other site 395492000549 ATP binding site [chemical binding]; other site 395492000550 Q-loop/lid; other site 395492000551 ABC transporter signature motif; other site 395492000552 Walker B; other site 395492000553 D-loop; other site 395492000554 H-loop/switch region; other site 395492000555 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395492000556 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 395492000557 Walker A/P-loop; other site 395492000558 ATP binding site [chemical binding]; other site 395492000559 Q-loop/lid; other site 395492000560 ABC transporter signature motif; other site 395492000561 Walker B; other site 395492000562 D-loop; other site 395492000563 H-loop/switch region; other site 395492000564 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395492000565 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_7; cd08353 395492000566 putative dimer interface [polypeptide binding]; other site 395492000567 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395492000568 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 395492000569 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 395492000570 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 395492000571 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 395492000572 Helix-turn-helix domains; Region: HTH; cl00088 395492000573 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492000574 dimerization interface [polypeptide binding]; other site 395492000575 Sulfatase; Region: Sulfatase; cl10460 395492000576 choline-sulfatase; Region: chol_sulfatase; TIGR03417 395492000577 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 395492000578 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 395492000579 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 395492000580 hypothetical protein; Provisional; Region: PRK06102 395492000581 Amidase; Region: Amidase; cl11426 395492000582 Protein of unknown function (DUF1810); Region: DUF1810; cl02370 395492000583 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 395492000584 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395492000585 Helix-turn-helix domains; Region: HTH; cl00088 395492000586 Helix-turn-helix domains; Region: HTH; cl00088 395492000587 5-oxoprolinase; Region: PLN02666 395492000588 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 395492000589 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 395492000590 short chain dehydrogenase; Provisional; Region: PRK06701 395492000591 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 395492000592 NAD binding site [chemical binding]; other site 395492000593 metal binding site [ion binding]; metal-binding site 395492000594 active site 395492000595 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 395492000596 Transcriptional regulator [Transcription]; Region: IclR; COG1414 395492000597 Helix-turn-helix domains; Region: HTH; cl00088 395492000598 Bacterial transcriptional regulator; Region: IclR; pfam01614 395492000599 dihydroorotase; Provisional; Region: PRK09237 395492000600 Metallo-dependent hydrolases, subgroup B is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_B; cd01307 395492000601 active site 395492000602 RNA polymerase sigma factor SigJ; Provisional; Region: PRK09636 395492000603 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395492000604 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 395492000605 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 395492000606 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 395492000607 L-rhamnose catabolism isomerase, Pseudomonas stutzeri subtype; Region: L_rham_iso_rhiz; TIGR02629 395492000608 rhamnulose-1-phosphate aldolase/alcohol dehydrogenase; Region: RhaD_aldol-ADH; TIGR02632 395492000609 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 395492000610 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492000611 NAD(P) binding site [chemical binding]; other site 395492000612 active site 395492000613 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 395492000614 Helix-turn-helix domains; Region: HTH; cl00088 395492000615 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 395492000616 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 395492000617 rhamnose ABC transporter, rhamnose-binding protein; Region: RhaS; TIGR02637 395492000618 ligand binding site [chemical binding]; other site 395492000619 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 395492000620 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 395492000621 Walker A/P-loop; other site 395492000622 ATP binding site [chemical binding]; other site 395492000623 Q-loop/lid; other site 395492000624 ABC transporter signature motif; other site 395492000625 Walker B; other site 395492000626 D-loop; other site 395492000627 H-loop/switch region; other site 395492000628 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 395492000629 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 395492000630 TM-ABC transporter signature motif; other site 395492000631 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 395492000632 TM-ABC transporter signature motif; other site 395492000633 Domain of unknown function (DUF718); Region: DUF718; cl01281 395492000634 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 395492000635 Novosphingobium aromaticivorans carbohydrate kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_NaCK_like; cd07772 395492000636 N- and C-terminal domain interface [polypeptide binding]; other site 395492000637 putative active site [active] 395492000638 putative MgATP binding site [chemical binding]; other site 395492000639 catalytic site [active] 395492000640 metal binding site [ion binding]; metal-binding site 395492000641 putative carbohydrate binding site [chemical binding]; other site 395492000642 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 395492000643 iron-hydroxamate transporter ATP-binding subunit; Provisional; Region: PRK10575 395492000644 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 395492000645 Walker A/P-loop; other site 395492000646 ATP binding site [chemical binding]; other site 395492000647 Q-loop/lid; other site 395492000648 ABC transporter signature motif; other site 395492000649 Walker B; other site 395492000650 D-loop; other site 395492000651 H-loop/switch region; other site 395492000652 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492000653 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 395492000654 choline dehydrogenase; Validated; Region: PRK02106 395492000655 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492000656 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 395492000657 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 395492000658 TM-ABC transporter signature motif; other site 395492000659 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 395492000660 TM-ABC transporter signature motif; other site 395492000661 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 395492000662 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 395492000663 Walker A/P-loop; other site 395492000664 ATP binding site [chemical binding]; other site 395492000665 Q-loop/lid; other site 395492000666 ABC transporter signature motif; other site 395492000667 Walker B; other site 395492000668 D-loop; other site 395492000669 H-loop/switch region; other site 395492000670 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 395492000671 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 395492000672 Walker A/P-loop; other site 395492000673 ATP binding site [chemical binding]; other site 395492000674 Q-loop/lid; other site 395492000675 ABC transporter signature motif; other site 395492000676 Walker B; other site 395492000677 D-loop; other site 395492000678 H-loop/switch region; other site 395492000679 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 395492000680 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 395492000681 putative ligand binding site [chemical binding]; other site 395492000682 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395492000683 Helix-turn-helix domains; Region: HTH; cl00088 395492000684 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492000685 dimerization interface [polypeptide binding]; other site 395492000686 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 395492000687 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 395492000688 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 395492000689 Cupin domain; Region: Cupin_2; cl09118 395492000690 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 395492000691 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 395492000692 FAD binding site [chemical binding]; other site 395492000693 substrate binding pocket [chemical binding]; other site 395492000694 catalytic base [active] 395492000695 Predicted membrane protein [Function unknown]; Region: COG3918 395492000696 mercuric reductase; Validated; Region: PRK06370 395492000697 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492000698 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395492000699 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 395492000700 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 395492000701 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 395492000702 Sorbitol dehydrogenase; Region: sorbitol_DH; cd05285 395492000703 inhibitor binding site; inhibition site 395492000704 catalytic Zn binding site [ion binding]; other site 395492000705 structural Zn binding site [ion binding]; other site 395492000706 NADP binding site [chemical binding]; other site 395492000707 tetramer interface [polypeptide binding]; other site 395492000708 Bacterial Ig-like domain; Region: Big_5; cl01012 395492000709 Potassium-transporting ATPase A subunit; Region: KdpA; cl00903 395492000710 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 395492000711 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 395492000712 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 395492000713 K+-transporting ATPase, c chain; Region: KdpC; cl00944 395492000714 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 395492000715 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 395492000716 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 395492000717 Ligand Binding Site [chemical binding]; other site 395492000718 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 395492000719 GAF domain; Region: GAF; cl15785 395492000720 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 395492000721 dimer interface [polypeptide binding]; other site 395492000722 phosphorylation site [posttranslational modification] 395492000723 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 395492000724 ATP binding site [chemical binding]; other site 395492000725 Mg2+ binding site [ion binding]; other site 395492000726 G-X-G motif; other site 395492000727 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 395492000728 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492000729 active site 395492000730 phosphorylation site [posttranslational modification] 395492000731 intermolecular recognition site; other site 395492000732 dimerization interface [polypeptide binding]; other site 395492000733 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 395492000734 DNA binding site [nucleotide binding] 395492000735 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 395492000736 active site 395492000737 phosphorylation site [posttranslational modification] 395492000738 Porin subfamily; Region: Porin_2; pfam02530 395492000739 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492000740 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 395492000741 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 395492000742 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492000743 dimer interface [polypeptide binding]; other site 395492000744 conserved gate region; other site 395492000745 putative PBP binding loops; other site 395492000746 ABC-ATPase subunit interface; other site 395492000747 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492000748 dimer interface [polypeptide binding]; other site 395492000749 conserved gate region; other site 395492000750 putative PBP binding loops; other site 395492000751 ABC-ATPase subunit interface; other site 395492000752 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 395492000753 Part of the ABC transporter complex cysAWTP involved in sulfate import. Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a...; Region: ABC_CysA_sulfate_importer; cd03296 395492000754 Walker A/P-loop; other site 395492000755 ATP binding site [chemical binding]; other site 395492000756 Q-loop/lid; other site 395492000757 ABC transporter signature motif; other site 395492000758 Walker B; other site 395492000759 D-loop; other site 395492000760 H-loop/switch region; other site 395492000761 TOBE-like domain; Region: TOBE_3; pfam12857 395492000762 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 395492000763 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14971 395492000764 peptidase T; Region: peptidase-T; TIGR01882 395492000765 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 395492000766 metal binding site [ion binding]; metal-binding site 395492000767 dimer interface [polypeptide binding]; other site 395492000768 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395492000769 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395492000770 Walker A/P-loop; other site 395492000771 ATP binding site [chemical binding]; other site 395492000772 Q-loop/lid; other site 395492000773 ABC transporter signature motif; other site 395492000774 Walker B; other site 395492000775 D-loop; other site 395492000776 H-loop/switch region; other site 395492000777 TOBE domain; Region: TOBE_2; cl01440 395492000778 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395492000779 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492000780 dimer interface [polypeptide binding]; other site 395492000781 conserved gate region; other site 395492000782 putative PBP binding loops; other site 395492000783 ABC-ATPase subunit interface; other site 395492000784 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492000785 dimer interface [polypeptide binding]; other site 395492000786 conserved gate region; other site 395492000787 putative PBP binding loops; other site 395492000788 ABC-ATPase subunit interface; other site 395492000789 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395492000790 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492000791 hypothetical protein; Provisional; Region: PRK05968 395492000792 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 395492000793 homodimer interface [polypeptide binding]; other site 395492000794 substrate-cofactor binding pocket; other site 395492000795 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492000796 catalytic residue [active] 395492000797 Transcriptional regulators [Transcription]; Region: FadR; COG2186 395492000798 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395492000799 DNA-binding site [nucleotide binding]; DNA binding site 395492000800 FCD domain; Region: FCD; cl11656 395492000801 Protein of unknown function (DUF995); Region: DUF995; pfam06191 395492000802 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 395492000803 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 395492000804 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 395492000805 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 395492000806 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 395492000807 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 395492000808 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl08302 395492000809 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 395492000810 putative catalytic site [active] 395492000811 putative metal binding site [ion binding]; other site 395492000812 putative phosphate binding site [ion binding]; other site 395492000813 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 395492000814 Putative catalytic domain, repeat 1, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_1; cd09157 395492000815 putative active site [active] 395492000816 catalytic site [active] 395492000817 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_2; cd09163 395492000818 putative active site [active] 395492000819 catalytic site [active] 395492000820 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 395492000821 Fe-S cluster binding site [ion binding]; other site 395492000822 active site 395492000823 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 395492000824 GST_N family, Class Sigma_like; composed of GSTs belonging to class Sigma and similar proteins, including GSTs from class Mu, Pi and Alpha. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of...; Region: GST_N_Sigma_like; cd03039 395492000825 glutathione s-transferase; Provisional; Region: PTZ00057 395492000826 GSH binding site (G-site) [chemical binding]; other site 395492000827 C-terminal domain interface [polypeptide binding]; other site 395492000828 dimer interface [polypeptide binding]; other site 395492000829 C-terminal, alpha helical domain of Class Sigma-like Glutathione S-transferases; Region: GST_C_Sigma_like; cd03192 395492000830 dimer interface [polypeptide binding]; other site 395492000831 N-terminal domain interface [polypeptide binding]; other site 395492000832 substrate binding pocket (H-site) [chemical binding]; other site 395492000833 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 395492000834 nucleotide binding site [chemical binding]; other site 395492000835 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 395492000836 DNA topoisomerase IB, C-terminal catalytic domain. Topoisomerase I promotes the relaxation of both positive and negative DNA superhelical tension by introducing a transient single-stranded break in duplex DNA. This function is vital for the processes of...; Region: Topo_IB_C; cd00659 395492000837 active site 395492000838 DNA binding site [nucleotide binding] 395492000839 Int/Topo IB signature motif; other site 395492000840 catalytic residues [active] 395492000841 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 395492000842 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 395492000843 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 395492000844 active site 395492000845 catalytic site [active] 395492000846 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 395492000847 classical (c) SDRs; Region: SDR_c; cd05233 395492000848 NAD(P) binding site [chemical binding]; other site 395492000849 active site 395492000850 Oxalate/Formate Antiporter; Region: 2A0111; TIGR00890 395492000851 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395492000852 putative substrate translocation pore; other site 395492000853 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 395492000854 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395492000855 Coenzyme A binding pocket [chemical binding]; other site 395492000856 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 395492000857 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 395492000858 dimer interface [polypeptide binding]; other site 395492000859 active site 395492000860 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 395492000861 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 395492000862 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 395492000863 Helix-turn-helix domains; Region: HTH; cl00088 395492000864 Bacterial transcriptional regulator; Region: IclR; pfam01614 395492000865 Phospholipase C [Cell envelope biogenesis, outer membrane]; Region: PlcC; COG3511 395492000866 Phosphoesterase family; Region: Phosphoesterase; cl15450 395492000867 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 395492000868 Predicted transcriptional regulator [Transcription]; Region: COG4189 395492000869 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 395492000870 dimerization interface [polypeptide binding]; other site 395492000871 putative DNA binding site [nucleotide binding]; other site 395492000872 putative Zn2+ binding site [ion binding]; other site 395492000873 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 395492000874 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; cl01412 395492000875 The substrate binding domain of a cellulose-binding protein from Thermotoga maritima contains the type 2 periplasmic binding fold; Region: PBP2_TmCBP_oligosaccharides_like; cd08509 395492000876 substrate binding site [chemical binding]; other site 395492000877 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 395492000878 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 395492000879 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492000880 dimer interface [polypeptide binding]; other site 395492000881 conserved gate region; other site 395492000882 putative PBP binding loops; other site 395492000883 ABC-ATPase subunit interface; other site 395492000884 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492000885 dimer interface [polypeptide binding]; other site 395492000886 conserved gate region; other site 395492000887 putative PBP binding loops; other site 395492000888 ABC-ATPase subunit interface; other site 395492000889 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 395492000890 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395492000891 Walker A/P-loop; other site 395492000892 ATP binding site [chemical binding]; other site 395492000893 Q-loop/lid; other site 395492000894 ABC transporter signature motif; other site 395492000895 Walker B; other site 395492000896 D-loop; other site 395492000897 H-loop/switch region; other site 395492000898 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395492000899 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 395492000900 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395492000901 Walker A/P-loop; other site 395492000902 ATP binding site [chemical binding]; other site 395492000903 Q-loop/lid; other site 395492000904 ABC transporter signature motif; other site 395492000905 Walker B; other site 395492000906 D-loop; other site 395492000907 H-loop/switch region; other site 395492000908 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395492000909 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 395492000910 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 395492000911 dimerization interface [polypeptide binding]; other site 395492000912 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395492000913 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395492000914 dimer interface [polypeptide binding]; other site 395492000915 putative CheW interface [polypeptide binding]; other site 395492000916 C-terminal peptidase (prc); Region: prc; TIGR00225 395492000917 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 395492000918 protein binding site [polypeptide binding]; other site 395492000919 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 395492000920 Catalytic dyad [active] 395492000921 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 395492000922 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492000923 elongation factor G; Reviewed; Region: PRK12740 395492000924 G1 box; other site 395492000925 GTP/Mg2+ binding site [chemical binding]; other site 395492000926 G2 box; other site 395492000927 Switch I region; other site 395492000928 G3 box; other site 395492000929 Switch II region; other site 395492000930 G4 box; other site 395492000931 G5 box; other site 395492000932 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 395492000933 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 395492000934 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 395492000935 active site 395492000936 catalytic residues [active] 395492000937 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 395492000938 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 395492000939 Walker A motif; other site 395492000940 ATP binding site [chemical binding]; other site 395492000941 Walker B motif; other site 395492000942 arginine finger; other site 395492000943 alpha-galactosidase; Provisional; Region: PRK15076 395492000944 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 395492000945 NAD binding site [chemical binding]; other site 395492000946 sugar binding site [chemical binding]; other site 395492000947 divalent metal binding site [ion binding]; other site 395492000948 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 395492000949 dimer interface [polypeptide binding]; other site 395492000950 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 395492000951 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395492000952 Walker A/P-loop; other site 395492000953 ATP binding site [chemical binding]; other site 395492000954 Q-loop/lid; other site 395492000955 ABC transporter signature motif; other site 395492000956 Walker B; other site 395492000957 D-loop; other site 395492000958 H-loop/switch region; other site 395492000959 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395492000960 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395492000961 Walker A/P-loop; other site 395492000962 ATP binding site [chemical binding]; other site 395492000963 Q-loop/lid; other site 395492000964 ABC transporter signature motif; other site 395492000965 Walker B; other site 395492000966 D-loop; other site 395492000967 H-loop/switch region; other site 395492000968 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 395492000969 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492000970 dimer interface [polypeptide binding]; other site 395492000971 conserved gate region; other site 395492000972 putative PBP binding loops; other site 395492000973 ABC-ATPase subunit interface; other site 395492000974 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 395492000975 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492000976 dimer interface [polypeptide binding]; other site 395492000977 conserved gate region; other site 395492000978 putative PBP binding loops; other site 395492000979 ABC-ATPase subunit interface; other site 395492000980 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_4; cd08500 395492000981 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 395492000982 alpha-galactosidase; Provisional; Region: PRK15076 395492000983 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 395492000984 NAD binding site [chemical binding]; other site 395492000985 sugar binding site [chemical binding]; other site 395492000986 divalent metal binding site [ion binding]; other site 395492000987 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 395492000988 dimer interface [polypeptide binding]; other site 395492000989 Cupin domain; Region: Cupin_2; cl09118 395492000990 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395492000991 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395492000992 Methyltransferase domain; Region: Methyltransf_31; pfam13847 395492000993 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 395492000994 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 395492000995 non-specific DNA binding site [nucleotide binding]; other site 395492000996 salt bridge; other site 395492000997 sequence-specific DNA binding site [nucleotide binding]; other site 395492000998 CHASE2 domain; Region: CHASE2; cl01732 395492000999 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 395492001000 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 395492001001 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 395492001002 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 395492001003 active site 395492001004 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 395492001005 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 395492001006 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 395492001007 active sites [active] 395492001008 tetramer interface [polypeptide binding]; other site 395492001009 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 395492001010 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 395492001011 Walker A/P-loop; other site 395492001012 ATP binding site [chemical binding]; other site 395492001013 Q-loop/lid; other site 395492001014 ABC transporter signature motif; other site 395492001015 Walker B; other site 395492001016 D-loop; other site 395492001017 H-loop/switch region; other site 395492001018 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492001019 dimer interface [polypeptide binding]; other site 395492001020 conserved gate region; other site 395492001021 putative PBP binding loops; other site 395492001022 ABC-ATPase subunit interface; other site 395492001023 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492001024 dimer interface [polypeptide binding]; other site 395492001025 conserved gate region; other site 395492001026 putative PBP binding loops; other site 395492001027 ABC-ATPase subunit interface; other site 395492001028 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 395492001029 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395492001030 substrate binding pocket [chemical binding]; other site 395492001031 membrane-bound complex binding site; other site 395492001032 hinge residues; other site 395492001033 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 395492001034 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395492001035 DNA-binding site [nucleotide binding]; DNA binding site 395492001036 UTRA domain; Region: UTRA; cl01230 395492001037 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395492001038 DNA-binding site [nucleotide binding]; DNA binding site 395492001039 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 395492001040 UTRA domain; Region: UTRA; cl01230 395492001041 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 395492001042 Metallo-dependent hydrolases, subgroup D is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_E; cd01313 395492001043 active site 395492001044 imidazolonepropionase; Validated; Region: PRK09356 395492001045 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 395492001046 active site 395492001047 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 395492001048 active sites [active] 395492001049 tetramer interface [polypeptide binding]; other site 395492001050 N-formylglutamate amidohydrolase; Region: FGase; cl01522 395492001051 urocanate hydratase; Provisional; Region: PRK05414 395492001052 HutD; Region: HutD; cl01532 395492001053 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 395492001054 HSP70 interaction site [polypeptide binding]; other site 395492001055 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 395492001056 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG3571 395492001057 RES domain; Region: RES; cl02411 395492001058 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 395492001059 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 395492001060 Helix-turn-helix domains; Region: HTH; cl00088 395492001061 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492001062 dimerization interface [polypeptide binding]; other site 395492001063 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395492001064 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 395492001065 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 395492001066 Protocatechuate 3,4-dioxygenase (3,4-PCD) , beta subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_beta; cd03464 395492001067 heterodimer interface [polypeptide binding]; other site 395492001068 multimer interface [polypeptide binding]; other site 395492001069 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 395492001070 active site 395492001071 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 395492001072 Protocatechuate 3,4-dioxygenase (3,4-PCD) , alpha subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_alpha; cd03463 395492001073 heterodimer interface [polypeptide binding]; other site 395492001074 active site 395492001075 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 395492001076 tetramer interface [polypeptide binding]; other site 395492001077 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 395492001078 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 395492001079 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 395492001080 shikimate binding site; other site 395492001081 NAD(P) binding site [chemical binding]; other site 395492001082 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395492001083 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492001084 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 395492001085 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 395492001086 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 395492001087 Walker A/P-loop; other site 395492001088 ATP binding site [chemical binding]; other site 395492001089 Q-loop/lid; other site 395492001090 ABC transporter signature motif; other site 395492001091 Walker B; other site 395492001092 D-loop; other site 395492001093 H-loop/switch region; other site 395492001094 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 395492001095 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492001096 dimer interface [polypeptide binding]; other site 395492001097 conserved gate region; other site 395492001098 putative PBP binding loops; other site 395492001099 ABC-ATPase subunit interface; other site 395492001100 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492001101 dimer interface [polypeptide binding]; other site 395492001102 conserved gate region; other site 395492001103 putative PBP binding loops; other site 395492001104 ABC-ATPase subunit interface; other site 395492001105 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 395492001106 trimer interface [polypeptide binding]; other site 395492001107 active site 395492001108 dimer interface [polypeptide binding]; other site 395492001109 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395492001110 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 395492001111 substrate binding pocket [chemical binding]; other site 395492001112 membrane-bound complex binding site; other site 395492001113 hinge residues; other site 395492001114 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 395492001115 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 395492001116 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 395492001117 dimer interface [polypeptide binding]; other site 395492001118 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 395492001119 active site 395492001120 Fe binding site [ion binding]; other site 395492001121 Transcriptional regulators [Transcription]; Region: GntR; COG1802 395492001122 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395492001123 DNA-binding site [nucleotide binding]; DNA binding site 395492001124 FCD domain; Region: FCD; cl11656 395492001125 Transcriptional regulators [Transcription]; Region: GntR; COG1802 395492001126 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395492001127 DNA-binding site [nucleotide binding]; DNA binding site 395492001128 FCD domain; Region: FCD; cl11656 395492001129 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 395492001130 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 395492001131 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395492001132 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u4; cd10928 395492001133 NodB motif; other site 395492001134 putative active site [active] 395492001135 putative catalytic site [active] 395492001136 putative Zn binding site [ion binding]; other site 395492001137 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395492001138 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 395492001139 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 395492001140 catalytic loop [active] 395492001141 iron binding site [ion binding]; other site 395492001142 cyclase homology domain; Region: CHD; cd07302 395492001143 nucleotidyl binding site; other site 395492001144 metal binding site [ion binding]; metal-binding site 395492001145 dimer interface [polypeptide binding]; other site 395492001146 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 395492001147 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 395492001148 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 395492001149 NADP binding site [chemical binding]; other site 395492001150 dimer interface [polypeptide binding]; other site 395492001151 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395492001152 Helix-turn-helix domains; Region: HTH; cl00088 395492001153 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492001154 dimerization interface [polypeptide binding]; other site 395492001155 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 395492001156 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492001157 Predicted transcriptional regulator [Transcription]; Region: COG1959 395492001158 Helix-turn-helix domains; Region: HTH; cl00088 395492001159 S-adenosyl-L-methionine methyltransferase; Region: Methyltransf_17; pfam12692 395492001160 Protein of unknown function (DUF3095); Region: DUF3095; pfam11294 395492001161 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 395492001162 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492001163 NAD(P) binding site [chemical binding]; other site 395492001164 active site 395492001165 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 395492001166 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492001167 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 395492001168 cyclase homology domain; Region: CHD; cd07302 395492001169 nucleotidyl binding site; other site 395492001170 metal binding site [ion binding]; metal-binding site 395492001171 dimer interface [polypeptide binding]; other site 395492001172 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 395492001173 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395492001174 Walker A/P-loop; other site 395492001175 ATP binding site [chemical binding]; other site 395492001176 Q-loop/lid; other site 395492001177 ABC transporter signature motif; other site 395492001178 Walker B; other site 395492001179 D-loop; other site 395492001180 H-loop/switch region; other site 395492001181 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395492001182 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395492001183 Walker A/P-loop; other site 395492001184 ATP binding site [chemical binding]; other site 395492001185 Q-loop/lid; other site 395492001186 ABC transporter signature motif; other site 395492001187 Walker B; other site 395492001188 D-loop; other site 395492001189 H-loop/switch region; other site 395492001190 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395492001191 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 395492001192 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_4; cd08500 395492001193 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 395492001194 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492001195 dimer interface [polypeptide binding]; other site 395492001196 conserved gate region; other site 395492001197 putative PBP binding loops; other site 395492001198 ABC-ATPase subunit interface; other site 395492001199 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 395492001200 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 395492001201 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492001202 dimer interface [polypeptide binding]; other site 395492001203 conserved gate region; other site 395492001204 putative PBP binding loops; other site 395492001205 ABC-ATPase subunit interface; other site 395492001206 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 395492001207 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 395492001208 colanic acid biosynthesis glycosyltransferase WcaL; Region: wcaL; TIGR04005 395492001209 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 395492001210 putative ADP-binding pocket [chemical binding]; other site 395492001211 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 395492001212 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 395492001213 Helix-turn-helix domains; Region: HTH; cl00088 395492001214 WYL domain; Region: WYL; cl14852 395492001215 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395492001216 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_11; cd07261 395492001217 putative dimer interface [polypeptide binding]; other site 395492001218 EVE domain; Region: EVE; cl00728 395492001219 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 395492001220 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a...; Region: ABCC_MRP_Like; cd03228 395492001221 Walker A/P-loop; other site 395492001222 ATP binding site [chemical binding]; other site 395492001223 Q-loop/lid; other site 395492001224 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492001225 ABC transporter signature motif; other site 395492001226 Walker B; other site 395492001227 D-loop; other site 395492001228 H-loop/switch region; other site 395492001229 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 395492001230 ligand binding site [chemical binding]; other site 395492001231 flexible hinge region; other site 395492001232 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 395492001233 metabolite-proton symporter; Region: 2A0106; TIGR00883 395492001234 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395492001235 putative substrate translocation pore; other site 395492001236 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 395492001237 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 395492001238 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 395492001239 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 395492001240 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 395492001241 D-pathway; other site 395492001242 Putative ubiquinol binding site [chemical binding]; other site 395492001243 Low-spin heme (heme b) binding site [chemical binding]; other site 395492001244 Putative water exit pathway; other site 395492001245 Binuclear center (heme o3/CuB) [ion binding]; other site 395492001246 K-pathway; other site 395492001247 Putative proton exit pathway; other site 395492001248 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 395492001249 Subunit I/III interface [polypeptide binding]; other site 395492001250 Subunit III/IV interface [polypeptide binding]; other site 395492001251 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 395492001252 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 395492001253 OpgC protein; Region: OpgC_C; cl00792 395492001254 Acyltransferase family; Region: Acyl_transf_3; pfam01757 395492001255 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395492001256 PAS domain; Region: PAS_9; pfam13426 395492001257 putative active site [active] 395492001258 heme pocket [chemical binding]; other site 395492001259 PAS domain S-box; Region: sensory_box; TIGR00229 395492001260 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395492001261 putative active site [active] 395492001262 heme pocket [chemical binding]; other site 395492001263 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 395492001264 dimer interface [polypeptide binding]; other site 395492001265 phosphorylation site [posttranslational modification] 395492001266 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 395492001267 ATP binding site [chemical binding]; other site 395492001268 Mg2+ binding site [ion binding]; other site 395492001269 G-X-G motif; other site 395492001270 Response regulator receiver domain; Region: Response_reg; pfam00072 395492001271 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492001272 active site 395492001273 phosphorylation site [posttranslational modification] 395492001274 intermolecular recognition site; other site 395492001275 dimerization interface [polypeptide binding]; other site 395492001276 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 395492001277 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492001278 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 395492001279 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 395492001280 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 395492001281 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492001282 Walker A/P-loop; other site 395492001283 ATP binding site [chemical binding]; other site 395492001284 Q-loop/lid; other site 395492001285 ABC transporter signature motif; other site 395492001286 Walker B; other site 395492001287 D-loop; other site 395492001288 H-loop/switch region; other site 395492001289 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 395492001290 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 395492001291 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and...; Region: ABCC_Glucan_exporter_like; cd03254 395492001292 Walker A/P-loop; other site 395492001293 ATP binding site [chemical binding]; other site 395492001294 Q-loop/lid; other site 395492001295 ABC transporter signature motif; other site 395492001296 Walker B; other site 395492001297 D-loop; other site 395492001298 H-loop/switch region; other site 395492001299 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395492001300 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395492001301 DNA binding site [nucleotide binding] 395492001302 domain linker motif; other site 395492001303 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_2; cd06278 395492001304 putative dimerization interface [polypeptide binding]; other site 395492001305 putative ligand binding site [chemical binding]; other site 395492001306 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395492001307 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395492001308 DNA binding site [nucleotide binding] 395492001309 domain linker motif; other site 395492001310 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 395492001311 ligand binding site [chemical binding]; other site 395492001312 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 395492001313 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395492001314 putative substrate translocation pore; other site 395492001315 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 395492001316 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395492001317 putative substrate translocation pore; other site 395492001318 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395492001319 Helix-turn-helix domains; Region: HTH; cl00088 395492001320 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 395492001321 response regulator; Provisional; Region: PRK13435 395492001322 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 395492001323 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 395492001324 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 395492001325 Subfamily of PAN/APPLE-like domains; present in plasma prekallikrein/coagulation factor XI, microneme antigen proteins, and a few prokaryotic proteins. PAN/APPLE domains fulfill diverse biological functions by mediating protein-protein or...; Region: APPLE_Factor_XI_like; cd01100 395492001326 putative binding site; other site 395492001327 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 395492001328 MG2 domain; Region: A2M_N; pfam01835 395492001329 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 395492001330 Alpha-2-macroglobulin family; Region: A2M; pfam00207 395492001331 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 395492001332 surface patch; other site 395492001333 thioester region; other site 395492001334 specificity defining residues; other site 395492001335 Membrane carboxypeptidase/penicillin-binding protein PbpC [Cell envelope biogenesis, outer membrane]; Region: PbpC; COG4953 395492001336 Transglycosylase; Region: Transgly; cl07896 395492001337 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 395492001338 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 395492001339 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 395492001340 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 395492001341 active site 395492001342 catalytic site [active] 395492001343 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 395492001344 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 395492001345 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 395492001346 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 395492001347 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 395492001348 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 395492001349 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 395492001350 DNA binding residues [nucleotide binding] 395492001351 dimer interface [polypeptide binding]; other site 395492001352 copper binding site [ion binding]; other site 395492001353 RNA polymerase sigma factor; Provisional; Region: PRK12511 395492001354 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395492001355 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 395492001356 DNA binding residues [nucleotide binding] 395492001357 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 395492001358 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 395492001359 Protein of unknown function (DUF1612); Region: DUF1612; pfam07756 395492001360 HTH DNA binding domain; Region: HTH_13; pfam11972 395492001361 replication initiation protein RepC; Provisional; Region: PRK13824 395492001362 Helix-turn-helix domains; Region: HTH; cl00088 395492001363 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 395492001364 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 395492001365 ParB-like nuclease domain; Region: ParBc; cl02129 395492001366 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 395492001367 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 395492001368 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492001369 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 395492001370 Magnesium ion binding site [ion binding]; other site 395492001371 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 395492001372 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 395492001373 precorrin-3B synthase; Region: CobG; TIGR02435 395492001374 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 395492001375 Precorrin isomerase [Coenzyme metabolism]; Region: CobH; cl00913 395492001376 precorrin-8X methylmutase; Validated; Region: cbiC; PRK05575 395492001377 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 395492001378 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 395492001379 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 395492001380 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 395492001381 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 395492001382 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 395492001383 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 395492001384 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 395492001385 cobalt-precorrin-6Y C(15)-methyltransferase; Validated; Region: PRK08287 395492001386 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 395492001387 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 395492001388 Predicted sugar epimerase [Carbohydrate transport and metabolism]; Region: COG4130 395492001389 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 395492001390 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395492001391 DNA binding site [nucleotide binding] 395492001392 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 395492001393 putative ligand binding site [chemical binding]; other site 395492001394 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 395492001395 This CD includes the putative hydrocarbon oxygenase, MocD, a bacterial rhizopine (3-O-methyl-scyllo-inosamine, 3-O-MSI) oxygenase, and other related proteins. It has been proposed that MocD, MocE (Rieske-like ferredoxin), and MocF (ferredoxin reductase)...; Region: Rhizopine-oxygenase-like; cd03511 395492001396 putative di-iron ligands [ion binding]; other site 395492001397 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 395492001398 [2Fe-2S] cluster binding site [ion binding]; other site 395492001399 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 395492001400 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395492001401 Members of the ICL/PEPM_KPHMT enzyme superfamily catalyze the formation and cleavage of either P-C or C-C bonds. Typical members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate...; Region: ICL_KPHMT; cl00435 395492001402 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 395492001403 Quinolinate synthetase A protein; Region: NadA; cl00420 395492001404 L-aspartate oxidase; Provisional; Region: PRK07512 395492001405 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492001406 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 395492001407 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06106 395492001408 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 395492001409 dimerization interface [polypeptide binding]; other site 395492001410 active site 395492001411 Bacterial transcriptional activator domain; Region: BTAD; pfam03704 395492001412 TolB amino-terminal domain; Region: TolB_N; cl00639 395492001413 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 395492001414 binding surface 395492001415 TPR motif; other site 395492001416 TPR repeat; Region: TPR_11; pfam13414 395492001417 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 395492001418 binding surface 395492001419 TPR motif; other site 395492001420 bacteriocin biosynthesis docking scaffold, SagD family; Region: docking_ocin; cl09146 395492001421 YcaO-like family; Region: YcaO; pfam02624 395492001422 TfuA-like protein; Region: TfuA; pfam07812 395492001423 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 395492001424 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 395492001425 non-specific DNA binding site [nucleotide binding]; other site 395492001426 salt bridge; other site 395492001427 sequence-specific DNA binding site [nucleotide binding]; other site 395492001428 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 395492001429 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 395492001430 active site 395492001431 Transcriptional regulator [Transcription]; Region: IclR; COG1414 395492001432 Helix-turn-helix domains; Region: HTH; cl00088 395492001433 Bacterial transcriptional regulator; Region: IclR; pfam01614 395492001434 short chain dehydrogenase; Provisional; Region: PRK07063 395492001435 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 395492001436 NAD binding site [chemical binding]; other site 395492001437 homotetramer interface [polypeptide binding]; other site 395492001438 homodimer interface [polypeptide binding]; other site 395492001439 active site 395492001440 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 395492001441 Human rTS beta is encoded by the rTS gene which, through alternative RNA splicing, also encodes rTS alpha whose mRNA is complementary to thymidylate synthase mRNA. rTS beta expression is associated with the production of small molecules that appear to...; Region: rTSbeta_L-fuconate_dehydratase; cd03324 395492001442 putative active site pocket [active] 395492001443 metal binding site [ion binding]; metal-binding site 395492001444 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 395492001445 substrate pocket [chemical binding]; other site 395492001446 active site 395492001447 dimer interface [polypeptide binding]; other site 395492001448 proteolytic cleavage site; other site 395492001449 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 395492001450 Sel1 repeat; Region: Sel1; cl02723 395492001451 Sel1 repeat; Region: Sel1; cl02723 395492001452 Sel1 repeat; Region: Sel1; cl02723 395492001453 Phospholipid methyltransferase; Region: PEMT; cl00763 395492001454 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 395492001455 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 395492001456 ligand binding site [chemical binding]; other site 395492001457 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 395492001458 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 395492001459 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cd00190 395492001460 cleavage site 395492001461 active site 395492001462 substrate binding sites [chemical binding]; other site 395492001463 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 395492001464 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 395492001465 SERine Proteinase INhibitors (serpins) exhibit conformational polymorphism shifting from native to cleaved, latent, delta, or polymorphic forms. Many serpins, such as antitrypsin and antichymotrypsin, function as serine protease inhibitors which regulate...; Region: SERPIN; cl00137 395492001466 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 395492001467 active site 395492001468 ATP binding site [chemical binding]; other site 395492001469 substrate binding site [chemical binding]; other site 395492001470 activation loop (A-loop); other site 395492001471 Protein of unknown function (DUF982); Region: DUF982; pfam06169 395492001472 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 395492001473 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 395492001474 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 395492001475 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 395492001476 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 395492001477 putative DNA binding site [nucleotide binding]; other site 395492001478 putative Zn2+ binding site [ion binding]; other site 395492001479 Helix-turn-helix domains; Region: HTH; cl00088 395492001480 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395492001481 Clp protease; Region: CLP_protease; pfam00574 395492001482 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 395492001483 oligomer interface [polypeptide binding]; other site 395492001484 active site residues [active] 395492001485 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 395492001486 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 395492001487 dimerization interface [polypeptide binding]; other site 395492001488 putative DNA binding site [nucleotide binding]; other site 395492001489 putative Zn2+ binding site [ion binding]; other site 395492001490 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 395492001491 active site 1 [active] 395492001492 dimer interface [polypeptide binding]; other site 395492001493 hexamer interface [polypeptide binding]; other site 395492001494 active site 2 [active] 395492001495 LysR family transcriptional regulator; Provisional; Region: PRK14997 395492001496 Helix-turn-helix domains; Region: HTH; cl00088 395492001497 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_8; cd08477 395492001498 putative effector binding pocket; other site 395492001499 putative dimerization interface [polypeptide binding]; other site 395492001500 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 395492001501 classical (c) SDRs; Region: SDR_c; cd05233 395492001502 NAD(P) binding site [chemical binding]; other site 395492001503 active site 395492001504 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 395492001505 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492001506 active site 395492001507 phosphorylation site [posttranslational modification] 395492001508 intermolecular recognition site; other site 395492001509 dimerization interface [polypeptide binding]; other site 395492001510 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 395492001511 DNA binding site [nucleotide binding] 395492001512 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 395492001513 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 395492001514 dimer interface [polypeptide binding]; other site 395492001515 phosphorylation site [posttranslational modification] 395492001516 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 395492001517 ATP binding site [chemical binding]; other site 395492001518 Mg2+ binding site [ion binding]; other site 395492001519 G-X-G motif; other site 395492001520 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 395492001521 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 395492001522 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 395492001523 putative active site [active] 395492001524 putative catalytic site [active] 395492001525 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 395492001526 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 395492001527 ATP-grasp domain; Region: ATP-grasp_4; cl03087 395492001528 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 395492001529 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 395492001530 carboxyltransferase (CT) interaction site; other site 395492001531 biotinylation site [posttranslational modification]; other site 395492001532 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 395492001533 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 395492001534 isovaleryl-CoA dehydrogenase; Region: PLN02519 395492001535 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 395492001536 substrate binding site [chemical binding]; other site 395492001537 FAD binding site [chemical binding]; other site 395492001538 catalytic base [active] 395492001539 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 395492001540 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 395492001541 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395492001542 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395492001543 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492001544 NAD(P) binding site [chemical binding]; other site 395492001545 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 395492001546 active site 395492001547 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 395492001548 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 395492001549 dimer interface [polypeptide binding]; other site 395492001550 active site 395492001551 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 395492001552 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 395492001553 active site 395492001554 2-oxoisovalerate dehydrogenase E1 alpha subunit N terminal; Region: OxoDH_E1alpha_N; pfam12573 395492001555 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 395492001556 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 395492001557 tetramer interface [polypeptide binding]; other site 395492001558 TPP-binding site [chemical binding]; other site 395492001559 heterodimer interface [polypeptide binding]; other site 395492001560 phosphorylation loop region [posttranslational modification] 395492001561 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 395492001562 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 395492001563 alpha subunit interface [polypeptide binding]; other site 395492001564 TPP binding site [chemical binding]; other site 395492001565 heterodimer interface [polypeptide binding]; other site 395492001566 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 395492001567 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 395492001568 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 395492001569 E3 interaction surface; other site 395492001570 lipoyl attachment site [posttranslational modification]; other site 395492001571 e3 binding domain; Region: E3_binding; pfam02817 395492001572 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 395492001573 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 395492001574 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395492001575 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 395492001576 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 395492001577 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 395492001578 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 395492001579 active site residues [active] 395492001580 dimer interface [polypeptide binding]; other site 395492001581 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 395492001582 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 395492001583 TPR motif; other site 395492001584 binding surface 395492001585 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 395492001586 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492001587 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 395492001588 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 395492001589 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 395492001590 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 395492001591 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 395492001592 ATP binding site [chemical binding]; other site 395492001593 Walker A motif; other site 395492001594 hexamer interface [polypeptide binding]; other site 395492001595 Walker B motif; other site 395492001596 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 395492001597 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 395492001598 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395492001599 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 395492001600 active site 395492001601 phosphorylation site [posttranslational modification] 395492001602 dimerization interface [polypeptide binding]; other site 395492001603 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 395492001604 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 395492001605 TadE-like protein; Region: TadE; cl10688 395492001606 TadE-like protein; Region: TadE; cl10688 395492001607 TadE-like protein; Region: TadE; cl10688 395492001608 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 395492001609 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 395492001610 SAF domain; Region: SAF; cl00555 395492001611 Helix-turn-helix domains; Region: HTH; cl00088 395492001612 Winged helix-turn helix; Region: HTH_29; pfam13551 395492001613 Helix-turn-helix domains; Region: HTH; cl00088 395492001614 Integrase core domain; Region: rve; cl01316 395492001615 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 395492001616 Helix-turn-helix domains; Region: HTH; cl00088 395492001617 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 395492001618 dimerization interface [polypeptide binding]; other site 395492001619 substrate binding pocket [chemical binding]; other site 395492001620 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 395492001621 tartrate dehydrogenase; Provisional; Region: PRK08194 395492001622 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 395492001623 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 395492001624 putative DNA binding site [nucleotide binding]; other site 395492001625 putative Zn2+ binding site [ion binding]; other site 395492001626 Helix-turn-helix domains; Region: HTH; cl00088 395492001627 hypothetical protein; Provisional; Region: PRK05965 395492001628 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 395492001629 inhibitor-cofactor binding pocket; inhibition site 395492001630 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492001631 catalytic residue [active] 395492001632 Predicted acetyltransferase [General function prediction only]; Region: COG3153 395492001633 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395492001634 Coenzyme A binding pocket [chemical binding]; other site 395492001635 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 395492001636 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 395492001637 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395492001638 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 395492001639 tetramerization interface [polypeptide binding]; other site 395492001640 NAD(P) binding site [chemical binding]; other site 395492001641 catalytic residues [active] 395492001642 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 395492001643 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 395492001644 tetramer interface [polypeptide binding]; other site 395492001645 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492001646 catalytic residue [active] 395492001647 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 395492001648 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492001649 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 395492001650 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395492001651 NAD binding site [chemical binding]; other site 395492001652 catalytic residues [active] 395492001653 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492001654 FAD dependent oxidoreductase; Region: DAO; pfam01266 395492001655 Cupin domain; Region: Cupin_2; cl09118 395492001656 Cupin domain; Region: Cupin_2; cl09118 395492001657 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 395492001658 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492001659 acetylornithine deacetylase (ArgE); Region: AcOrn-deacetyl; TIGR01892 395492001660 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 395492001661 metal binding site [ion binding]; metal-binding site 395492001662 putative dimer interface [polypeptide binding]; other site 395492001663 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 395492001664 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395492001665 EamA-like transporter family; Region: EamA; cl01037 395492001666 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 395492001667 Cupin domain; Region: Cupin_2; cl09118 395492001668 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395492001669 4-hydroxyphenylacetate 3-monooxygenase, oxygenase component; Region: HpaB-2; TIGR02310 395492001670 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 395492001671 Flavin Reductases; Region: FlaRed; cl00801 395492001672 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 395492001673 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395492001674 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 395492001675 NAD(P) binding site [chemical binding]; other site 395492001676 catalytic residues [active] 395492001677 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 395492001678 Transcriptional regulator [Transcription]; Region: IclR; COG1414 395492001679 Helix-turn-helix domains; Region: HTH; cl00088 395492001680 Bacterial transcriptional regulator; Region: IclR; pfam01614 395492001681 Uncharacterized protein family (UPF0261); Region: UPF0261; cl02262 395492001682 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 395492001683 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 395492001684 motif II; other site 395492001685 hypothetical protein; Provisional; Region: PRK07481 395492001686 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 395492001687 inhibitor-cofactor binding pocket; inhibition site 395492001688 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492001689 catalytic residue [active] 395492001690 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 395492001691 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 395492001692 inhibitor-cofactor binding pocket; inhibition site 395492001693 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492001694 catalytic residue [active] 395492001695 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 395492001696 active site 395492001697 ATP binding site [chemical binding]; other site 395492001698 substrate binding site [chemical binding]; other site 395492001699 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 395492001700 putative substrate binding pocket [chemical binding]; other site 395492001701 trimer interface [polypeptide binding]; other site 395492001702 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395492001703 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 395492001704 NAD binding site [chemical binding]; other site 395492001705 catalytic residues [active] 395492001706 3,4-dihydroxyphenylacetate 2,3-dioxygenase; Region: HpaD; TIGR02295 395492001707 N-terminal domain of 3,4-dihydroxyphenylacetate 2,3-dioxygenase (HPCD); belongs to the type I class II family of extradiol dioxygenases; Region: HPCD_N_class_II; cd07266 395492001708 tetramer interface [polypeptide binding]; other site 395492001709 C-terminal domain of 3,4-dihydroxyphenylacetate 2,3-dioxygenase (HPCD), which catalyses the second step in the degradation of 4-hydroxyphenylacetate to succinate and pyruvate; belongs to the type I class II family of extradiol dioxygenases; Region: HPCD_C_class_II; cd07256 395492001710 tetramer interface [polypeptide binding]; other site 395492001711 active site 395492001712 metal binding site [ion binding]; metal-binding site 395492001713 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395492001714 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 395492001715 tetramerization interface [polypeptide binding]; other site 395492001716 NAD(P) binding site [chemical binding]; other site 395492001717 catalytic residues [active] 395492001718 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 395492001719 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 395492001720 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 395492001721 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 395492001722 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 395492001723 classical (c) SDRs; Region: SDR_c; cd05233 395492001724 NAD(P) binding site [chemical binding]; other site 395492001725 3-alpha-hydroxysteroid dehydrogenase; Provisional; Region: PRK12428 395492001726 active site 395492001727 Molybdenum cofactor biosynthesis protein F; Region: MoaF; pfam10703 395492001728 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 395492001729 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 395492001730 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 395492001731 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 395492001732 Walker A/P-loop; other site 395492001733 ATP binding site [chemical binding]; other site 395492001734 Q-loop/lid; other site 395492001735 ABC transporter signature motif; other site 395492001736 Walker B; other site 395492001737 D-loop; other site 395492001738 H-loop/switch region; other site 395492001739 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 395492001740 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 395492001741 Walker A/P-loop; other site 395492001742 ATP binding site [chemical binding]; other site 395492001743 Q-loop/lid; other site 395492001744 ABC transporter signature motif; other site 395492001745 Walker B; other site 395492001746 D-loop; other site 395492001747 H-loop/switch region; other site 395492001748 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 395492001749 TM-ABC transporter signature motif; other site 395492001750 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 395492001751 TM-ABC transporter signature motif; other site 395492001752 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 395492001753 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_7; cd06341 395492001754 putative ligand binding site [chemical binding]; other site 395492001755 choline dehydrogenase; Validated; Region: PRK02106 395492001756 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 395492001757 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395492001758 Streptomyces aureofaciens putative aldehyde dehydrogenase AldA (AAD23400)-like; Region: ALDH_AldA-AAD23400; cd07106 395492001759 NAD(P) binding site [chemical binding]; other site 395492001760 catalytic residues [active] 395492001761 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 395492001762 Helix-turn-helix domains; Region: HTH; cl00088 395492001763 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395492001764 Helix-turn-helix domains; Region: HTH; cl00088 395492001765 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 395492001766 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 395492001767 [2Fe-2S] cluster binding site [ion binding]; other site 395492001768 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 395492001769 hydrophobic ligand binding site; other site 395492001770 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 395492001771 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 395492001772 putative C-terminal domain interface [polypeptide binding]; other site 395492001773 putative GSH binding site (G-site) [chemical binding]; other site 395492001774 putative dimer interface [polypeptide binding]; other site 395492001775 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 395492001776 N-terminal domain interface [polypeptide binding]; other site 395492001777 dimer interface [polypeptide binding]; other site 395492001778 substrate binding pocket (H-site) [chemical binding]; other site 395492001779 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 395492001780 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 395492001781 active site 395492001782 putative substrate binding pocket [chemical binding]; other site 395492001783 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 395492001784 putative ligand binding site [chemical binding]; other site 395492001785 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 395492001786 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 395492001787 Walker A/P-loop; other site 395492001788 ATP binding site [chemical binding]; other site 395492001789 Q-loop/lid; other site 395492001790 ABC transporter signature motif; other site 395492001791 Walker B; other site 395492001792 D-loop; other site 395492001793 H-loop/switch region; other site 395492001794 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 395492001795 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 395492001796 TM-ABC transporter signature motif; other site 395492001797 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 395492001798 TM-ABC transporter signature motif; other site 395492001799 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 395492001800 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 395492001801 phosphate binding site [ion binding]; other site 395492001802 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 395492001803 NMT1-like family; Region: NMT1_2; cl15260 395492001804 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 395492001805 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492001806 putative PBP binding loops; other site 395492001807 dimer interface [polypeptide binding]; other site 395492001808 ABC-ATPase subunit interface; other site 395492001809 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 395492001810 nitrate transport ATP-binding subunits C and D; Region: ntrCD; TIGR01184 395492001811 Walker A/P-loop; other site 395492001812 ATP binding site [chemical binding]; other site 395492001813 Q-loop/lid; other site 395492001814 ABC transporter signature motif; other site 395492001815 Walker B; other site 395492001816 D-loop; other site 395492001817 H-loop/switch region; other site 395492001818 Transcriptional regulators [Transcription]; Region: FadR; COG2186 395492001819 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395492001820 DNA-binding site [nucleotide binding]; DNA binding site 395492001821 FCD domain; Region: FCD; cl11656 395492001822 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 395492001823 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 395492001824 putative ligand binding site [chemical binding]; other site 395492001825 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 395492001826 TM-ABC transporter signature motif; other site 395492001827 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 395492001828 TM-ABC transporter signature motif; other site 395492001829 Isochorismatase family; Region: Isochorismatase; pfam00857 395492001830 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 395492001831 catalytic triad [active] 395492001832 conserved cis-peptide bond; other site 395492001833 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 395492001834 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 395492001835 Walker A/P-loop; other site 395492001836 ATP binding site [chemical binding]; other site 395492001837 Q-loop/lid; other site 395492001838 ABC transporter signature motif; other site 395492001839 Walker B; other site 395492001840 D-loop; other site 395492001841 H-loop/switch region; other site 395492001842 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 395492001843 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 395492001844 catalytic triad [active] 395492001845 conserved cis-peptide bond; other site 395492001846 Cupin domain; Region: Cupin_2; cl09118 395492001847 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 395492001848 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 395492001849 phosphate binding site [ion binding]; other site 395492001850 Isochorismatase family; Region: Isochorismatase; pfam00857 395492001851 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 395492001852 catalytic triad [active] 395492001853 conserved cis-peptide bond; other site 395492001854 CHASE4 domain; Region: CHASE4; cl01308 395492001855 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395492001856 metal binding site [ion binding]; metal-binding site 395492001857 active site 395492001858 I-site; other site 395492001859 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 395492001860 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 395492001861 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395492001862 substrate binding pocket [chemical binding]; other site 395492001863 membrane-bound complex binding site; other site 395492001864 hinge residues; other site 395492001865 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 395492001866 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 395492001867 NAD binding site [chemical binding]; other site 395492001868 catalytic Zn binding site [ion binding]; other site 395492001869 structural Zn binding site [ion binding]; other site 395492001870 EamA-like transporter family; Region: EamA; cl01037 395492001871 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 395492001872 EamA-like transporter family; Region: EamA; cl01037 395492001873 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395492001874 Helix-turn-helix domains; Region: HTH; cl00088 395492001875 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492001876 dimerization interface [polypeptide binding]; other site 395492001877 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 395492001878 conserved cys residue [active] 395492001879 DNA-binding transcriptional regulator AraC; Provisional; Region: PRK10572 395492001880 Helix-turn-helix domain; Region: HTH_18; pfam12833 395492001881 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 395492001882 bifunctional 3-hydroxyacyl-CoA dehydrogenase/thioesterase; Validated; Region: PRK07531 395492001883 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492001884 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 395492001885 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 395492001886 active site 395492001887 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 395492001888 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 395492001889 active site 395492001890 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 395492001891 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492001892 CoA-ligase; Region: Ligase_CoA; cl02894 395492001893 ATP-grasp domain; Region: ATP-grasp_4; cl03087 395492001894 carnitinyl-CoA dehydratase; Provisional; Region: PRK03580 395492001895 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 395492001896 substrate binding site [chemical binding]; other site 395492001897 oxyanion hole (OAH) forming residues; other site 395492001898 trimer interface [polypeptide binding]; other site 395492001899 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 395492001900 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 395492001901 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 395492001902 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492001903 dimer interface [polypeptide binding]; other site 395492001904 conserved gate region; other site 395492001905 ABC-ATPase subunit interface; other site 395492001906 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492001907 dimer interface [polypeptide binding]; other site 395492001908 conserved gate region; other site 395492001909 ABC-ATPase subunit interface; other site 395492001910 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 395492001911 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395492001912 Walker A/P-loop; other site 395492001913 ATP binding site [chemical binding]; other site 395492001914 Q-loop/lid; other site 395492001915 ABC transporter signature motif; other site 395492001916 Walker B; other site 395492001917 D-loop; other site 395492001918 H-loop/switch region; other site 395492001919 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395492001920 Walker A/P-loop; other site 395492001921 ATP binding site [chemical binding]; other site 395492001922 Q-loop/lid; other site 395492001923 ABC transporter signature motif; other site 395492001924 Walker B; other site 395492001925 D-loop; other site 395492001926 H-loop/switch region; other site 395492001927 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 395492001928 sequence-specific DNA binding site [nucleotide binding]; other site 395492001929 salt bridge; other site 395492001930 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 395492001931 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 395492001932 X-Pro dipeptidyl-peptidase (S15 family); Region: Peptidase_S15; pfam02129 395492001933 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395492001934 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; cl08482 395492001935 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 395492001936 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 395492001937 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395492001938 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 395492001939 DNA binding residues [nucleotide binding] 395492001940 von Willebrand factor; Region: vWF_A; pfam12450 395492001941 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 395492001942 VWA subgroup: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_subgroup; cd01465 395492001943 metal ion-dependent adhesion site (MIDAS); other site 395492001944 Domain of unknown function (DUF3520); Region: DUF3520; pfam12034 395492001945 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 395492001946 Strictosidine synthase; Region: Str_synth; pfam03088 395492001947 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395492001948 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395492001949 DNA binding site [nucleotide binding] 395492001950 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 395492001951 putative dimerization interface [polypeptide binding]; other site 395492001952 putative ligand binding site [chemical binding]; other site 395492001953 L-idonate 5-dehydrogenase; Provisional; Region: PRK09880 395492001954 L-idonate 5-dehydrogenase; Region: idonate-5-DH; cd08232 395492001955 putative NAD(P) binding site [chemical binding]; other site 395492001956 catalytic Zn binding site [ion binding]; other site 395492001957 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 395492001958 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492001959 gluconate 5-dehydrogenase; Provisional; Region: PRK06124 395492001960 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 395492001961 NADP binding site [chemical binding]; other site 395492001962 homodimer interface [polypeptide binding]; other site 395492001963 active site 395492001964 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 395492001965 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 395492001966 ATP-binding site [chemical binding]; other site 395492001967 Gluconate-6-phosphate binding site [chemical binding]; other site 395492001968 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 395492001969 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492001970 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 395492001971 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 395492001972 Walker A/P-loop; other site 395492001973 ATP binding site [chemical binding]; other site 395492001974 Q-loop/lid; other site 395492001975 ABC transporter signature motif; other site 395492001976 Walker B; other site 395492001977 D-loop; other site 395492001978 H-loop/switch region; other site 395492001979 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 395492001980 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 395492001981 TM-ABC transporter signature motif; other site 395492001982 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_6; cd06315 395492001983 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 395492001984 putative ligand binding site [chemical binding]; other site 395492001985 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 395492001986 NMT1-like family; Region: NMT1_2; cl15260 395492001987 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 395492001988 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 395492001989 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 395492001990 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 395492001991 Walker A/P-loop; other site 395492001992 ATP binding site [chemical binding]; other site 395492001993 Q-loop/lid; other site 395492001994 ABC transporter signature motif; other site 395492001995 Walker B; other site 395492001996 D-loop; other site 395492001997 H-loop/switch region; other site 395492001998 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 395492001999 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 395492002000 active site 395492002001 non-prolyl cis peptide bond; other site 395492002002 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 395492002003 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 395492002004 active site 395492002005 dimer interface [polypeptide binding]; other site 395492002006 non-prolyl cis peptide bond; other site 395492002007 insertion regions; other site 395492002008 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395492002009 metal binding site [ion binding]; metal-binding site 395492002010 active site 395492002011 I-site; other site 395492002012 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 395492002013 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 395492002014 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 395492002015 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395492002016 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395492002017 dimer interface [polypeptide binding]; other site 395492002018 putative CheW interface [polypeptide binding]; other site 395492002019 Sodium:solute symporter family; Region: SSF; cl00456 395492002020 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 395492002021 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 395492002022 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492002023 active site 395492002024 phosphorylation site [posttranslational modification] 395492002025 intermolecular recognition site; other site 395492002026 dimerization interface [polypeptide binding]; other site 395492002027 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 395492002028 DNA binding residues [nucleotide binding] 395492002029 dimerization interface [polypeptide binding]; other site 395492002030 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 395492002031 Cache domain; Region: Cache_2; cl07034 395492002032 Histidine kinase; Region: HisKA_3; pfam07730 395492002033 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 395492002034 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 395492002035 Helix-turn-helix domains; Region: HTH; cl00088 395492002036 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 395492002037 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 395492002038 Walker A/P-loop; other site 395492002039 ATP binding site [chemical binding]; other site 395492002040 Q-loop/lid; other site 395492002041 ABC transporter signature motif; other site 395492002042 Walker B; other site 395492002043 D-loop; other site 395492002044 H-loop/switch region; other site 395492002045 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395492002046 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 395492002047 substrate binding pocket [chemical binding]; other site 395492002048 membrane-bound complex binding site; other site 395492002049 hinge residues; other site 395492002050 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 395492002051 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 395492002052 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492002053 dimer interface [polypeptide binding]; other site 395492002054 conserved gate region; other site 395492002055 putative PBP binding loops; other site 395492002056 ABC-ATPase subunit interface; other site 395492002057 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 395492002058 Helix-turn-helix domains; Region: HTH; cl00088 395492002059 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 395492002060 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 395492002061 Cl- selectivity filter; other site 395492002062 Cl- binding residues [ion binding]; other site 395492002063 pore gating glutamate residue; other site 395492002064 dimer interface [polypeptide binding]; other site 395492002065 FOG: CBS domain [General function prediction only]; Region: COG0517 395492002066 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc; cd04612 395492002067 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 395492002068 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 395492002069 oligomeric interface; other site 395492002070 putative active site [active] 395492002071 homodimer interface [polypeptide binding]; other site 395492002072 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 395492002073 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 395492002074 Walker A/P-loop; other site 395492002075 ATP binding site [chemical binding]; other site 395492002076 Q-loop/lid; other site 395492002077 ABC transporter signature motif; other site 395492002078 Walker B; other site 395492002079 D-loop; other site 395492002080 H-loop/switch region; other site 395492002081 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 395492002082 NMT1-like family; Region: NMT1_2; cl15260 395492002083 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 395492002084 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492002085 dimer interface [polypeptide binding]; other site 395492002086 conserved gate region; other site 395492002087 putative PBP binding loops; other site 395492002088 ABC-ATPase subunit interface; other site 395492002089 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 395492002090 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 395492002091 active site 395492002092 non-prolyl cis peptide bond; other site 395492002093 hypothetical protein; Validated; Region: PRK06201 395492002094 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 395492002095 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395492002096 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 395492002097 substrate binding pocket [chemical binding]; other site 395492002098 membrane-bound complex binding site; other site 395492002099 hinge residues; other site 395492002100 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 395492002101 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 395492002102 Walker A/P-loop; other site 395492002103 ATP binding site [chemical binding]; other site 395492002104 Q-loop/lid; other site 395492002105 ABC transporter signature motif; other site 395492002106 Walker B; other site 395492002107 D-loop; other site 395492002108 H-loop/switch region; other site 395492002109 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492002110 dimer interface [polypeptide binding]; other site 395492002111 conserved gate region; other site 395492002112 putative PBP binding loops; other site 395492002113 ABC-ATPase subunit interface; other site 395492002114 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 395492002115 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492002116 dimer interface [polypeptide binding]; other site 395492002117 conserved gate region; other site 395492002118 putative PBP binding loops; other site 395492002119 ABC-ATPase subunit interface; other site 395492002120 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 395492002121 classical (c) SDRs; Region: SDR_c; cd05233 395492002122 NAD(P) binding site [chemical binding]; other site 395492002123 active site 395492002124 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 395492002125 Helix-turn-helix domains; Region: HTH; cl00088 395492002126 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 395492002127 putative dimerization interface [polypeptide binding]; other site 395492002128 aspartate aminotransferase; Provisional; Region: PRK05764 395492002129 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 395492002130 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492002131 homodimer interface [polypeptide binding]; other site 395492002132 catalytic residue [active] 395492002133 LamB/YcsF family; Region: LamB_YcsF; cl00664 395492002134 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 395492002135 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 395492002136 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 395492002137 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 395492002138 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395492002139 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 395492002140 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 395492002141 ATP-grasp domain; Region: ATP-grasp_4; cl03087 395492002142 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 395492002143 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 395492002144 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 395492002145 carboxyltransferase (CT) interaction site; other site 395492002146 biotinylation site [posttranslational modification]; other site 395492002147 Helix-turn-helix domains; Region: HTH; cl00088 395492002148 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 395492002149 HTH-like domain; Region: HTH_21; pfam13276 395492002150 Integrase core domain; Region: rve; cl01316 395492002151 Integrase core domain; Region: rve_3; cl15866 395492002152 Peptidase M4 family containing mostly uncharacterized proteins; Region: M4_uncharacterized; cd09598 395492002153 Zn binding site [ion binding]; other site 395492002154 cyclase homology domain; Region: CHD; cd07302 395492002155 nucleotidyl binding site; other site 395492002156 metal binding site [ion binding]; metal-binding site 395492002157 dimer interface [polypeptide binding]; other site 395492002158 TolB amino-terminal domain; Region: TolB_N; cl00639 395492002159 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 395492002160 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 395492002161 binding surface 395492002162 TPR motif; other site 395492002163 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 395492002164 binding surface 395492002165 TPR motif; other site 395492002166 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 395492002167 binding surface 395492002168 TPR motif; other site 395492002169 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 395492002170 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 395492002171 oligomeric interface; other site 395492002172 putative active site [active] 395492002173 homodimer interface [polypeptide binding]; other site 395492002174 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395492002175 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395492002176 DNA binding site [nucleotide binding] 395492002177 domain linker motif; other site 395492002178 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 395492002179 dimerization interface [polypeptide binding]; other site 395492002180 ligand binding site [chemical binding]; other site 395492002181 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 395492002182 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 395492002183 Metal-binding active site; metal-binding site 395492002184 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395492002185 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492002186 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 395492002187 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492002188 dimer interface [polypeptide binding]; other site 395492002189 conserved gate region; other site 395492002190 putative PBP binding loops; other site 395492002191 ABC-ATPase subunit interface; other site 395492002192 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395492002193 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492002194 Walker A/P-loop; other site 395492002195 ATP binding site [chemical binding]; other site 395492002196 Q-loop/lid; other site 395492002197 ABC transporter signature motif; other site 395492002198 Walker B; other site 395492002199 D-loop; other site 395492002200 H-loop/switch region; other site 395492002201 TOBE domain; Region: TOBE_2; cl01440 395492002202 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 395492002203 non-specific DNA binding site [nucleotide binding]; other site 395492002204 salt bridge; other site 395492002205 sequence-specific DNA binding site [nucleotide binding]; other site 395492002206 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 395492002207 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 395492002208 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 395492002209 active site 395492002210 catalytic tetrad [active] 395492002211 Helix-turn-helix domains; Region: HTH; cl00088 395492002212 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 395492002213 putative effector binding pocket; other site 395492002214 putative dimerization interface [polypeptide binding]; other site 395492002215 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 395492002216 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 395492002217 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 395492002218 Domain of unknown function (DUF4173); Region: DUF4173; pfam13777 395492002219 DNA-binding response regulator CreB; Provisional; Region: PRK11083 395492002220 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492002221 active site 395492002222 phosphorylation site [posttranslational modification] 395492002223 intermolecular recognition site; other site 395492002224 dimerization interface [polypeptide binding]; other site 395492002225 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 395492002226 DNA binding site [nucleotide binding] 395492002227 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 395492002228 dimer interface [polypeptide binding]; other site 395492002229 phosphorylation site [posttranslational modification] 395492002230 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 395492002231 ATP binding site [chemical binding]; other site 395492002232 Mg2+ binding site [ion binding]; other site 395492002233 G-X-G motif; other site 395492002234 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395492002235 Helix-turn-helix domains; Region: HTH; cl00088 395492002236 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 395492002237 classical (c) SDRs; Region: SDR_c; cd05233 395492002238 NAD(P) binding site [chemical binding]; other site 395492002239 active site 395492002240 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 395492002241 classical (c) SDRs; Region: SDR_c; cd05233 395492002242 NAD(P) binding site [chemical binding]; other site 395492002243 active site 395492002244 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 395492002245 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 395492002246 TM-ABC transporter signature motif; other site 395492002247 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 395492002248 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492002249 Walker A/P-loop; other site 395492002250 ATP binding site [chemical binding]; other site 395492002251 Q-loop/lid; other site 395492002252 ABC transporter signature motif; other site 395492002253 Walker B; other site 395492002254 D-loop; other site 395492002255 H-loop/switch region; other site 395492002256 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 395492002257 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 395492002258 putative ligand binding site [chemical binding]; other site 395492002259 Cupin domain; Region: Cupin_2; cl09118 395492002260 Helix-turn-helix domain; Region: HTH_18; pfam12833 395492002261 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395492002262 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 395492002263 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 395492002264 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395492002265 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395492002266 DNA binding site [nucleotide binding] 395492002267 Ligand-binding domain of DNA-binding regulatory proteins specific to sucrose that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_sucrose_transcription_regulator; cd06288 395492002268 putative dimerization interface [polypeptide binding]; other site 395492002269 putative ligand binding site [chemical binding]; other site 395492002270 Periplasmic sugar-binding domain of Thermotoga maritima glucose-binding protein (tmGBP) and its close homologs; Region: PBP1_tmGBP; cd06314 395492002271 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 395492002272 ligand binding site [chemical binding]; other site 395492002273 dimerization interface [polypeptide binding]; other site 395492002274 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 395492002275 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492002276 Walker A/P-loop; other site 395492002277 ATP binding site [chemical binding]; other site 395492002278 Q-loop/lid; other site 395492002279 ABC transporter signature motif; other site 395492002280 Walker B; other site 395492002281 D-loop; other site 395492002282 H-loop/switch region; other site 395492002283 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 395492002284 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 395492002285 TM-ABC transporter signature motif; other site 395492002286 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 395492002287 Helix-turn-helix domains; Region: HTH; cl00088 395492002288 Integrase core domain; Region: rve; cl01316 395492002289 flagellar biosynthetic protein FlhF; Region: FlhF; TIGR03499 395492002290 ribonuclease E; Reviewed; Region: rne; PRK10811 395492002291 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 395492002292 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 395492002293 CoA-transferase family III; Region: CoA_transf_3; pfam02515 395492002294 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 395492002295 CoA-transferase family III; Region: CoA_transf_3; pfam02515 395492002296 choline dehydrogenase; Validated; Region: PRK02106 395492002297 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492002298 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 395492002299 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 395492002300 Helix-turn-helix domains; Region: HTH; cl00088 395492002301 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492002302 dimerization interface [polypeptide binding]; other site 395492002303 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395492002304 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395492002305 putative substrate translocation pore; other site 395492002306 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395492002307 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395492002308 DNA binding site [nucleotide binding] 395492002309 domain linker motif; other site 395492002310 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 395492002311 dimerization interface [polypeptide binding]; other site 395492002312 ligand binding site [chemical binding]; other site 395492002313 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 395492002314 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 395492002315 ligand binding site [chemical binding]; other site 395492002316 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 395492002317 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 395492002318 Walker A/P-loop; other site 395492002319 ATP binding site [chemical binding]; other site 395492002320 Q-loop/lid; other site 395492002321 ABC transporter signature motif; other site 395492002322 Walker B; other site 395492002323 D-loop; other site 395492002324 H-loop/switch region; other site 395492002325 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 395492002326 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 395492002327 TM-ABC transporter signature motif; other site 395492002328 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 395492002329 TM-ABC transporter signature motif; other site 395492002330 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 395492002331 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 395492002332 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 395492002333 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395492002334 metal binding site [ion binding]; metal-binding site 395492002335 active site 395492002336 I-site; other site 395492002337 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 395492002338 Periplasmic binding domain of two-component sensor kinase signaling systems; Region: PBP1_sensor_kinase_like; cd06308 395492002339 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 395492002340 putative ligand binding site [chemical binding]; other site 395492002341 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 395492002342 TM-ABC transporter signature motif; other site 395492002343 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 395492002344 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 395492002345 Walker A/P-loop; other site 395492002346 ATP binding site [chemical binding]; other site 395492002347 Q-loop/lid; other site 395492002348 ABC transporter signature motif; other site 395492002349 Walker B; other site 395492002350 D-loop; other site 395492002351 H-loop/switch region; other site 395492002352 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 395492002353 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395492002354 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395492002355 DNA binding site [nucleotide binding] 395492002356 domain linker motif; other site 395492002357 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 395492002358 dimerization interface [polypeptide binding]; other site 395492002359 ligand binding site [chemical binding]; other site 395492002360 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 395492002361 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_36; cd04695 395492002362 nudix motif; other site 395492002363 Protein of unknown function (DUF968); Region: DUF968; pfam06147 395492002364 Helix-turn-helix domain; Region: HTH_18; pfam12833 395492002365 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395492002366 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 395492002367 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 395492002368 Walker A/P-loop; other site 395492002369 ATP binding site [chemical binding]; other site 395492002370 Q-loop/lid; other site 395492002371 ABC transporter signature motif; other site 395492002372 Walker B; other site 395492002373 D-loop; other site 395492002374 H-loop/switch region; other site 395492002375 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 395492002376 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492002377 dimer interface [polypeptide binding]; other site 395492002378 conserved gate region; other site 395492002379 putative PBP binding loops; other site 395492002380 ABC-ATPase subunit interface; other site 395492002381 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 395492002382 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492002383 dimer interface [polypeptide binding]; other site 395492002384 conserved gate region; other site 395492002385 putative PBP binding loops; other site 395492002386 ABC-ATPase subunit interface; other site 395492002387 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 395492002388 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395492002389 substrate binding pocket [chemical binding]; other site 395492002390 membrane-bound complex binding site; other site 395492002391 hinge residues; other site 395492002392 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 395492002393 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395492002394 DNA-binding site [nucleotide binding]; DNA binding site 395492002395 UTRA domain; Region: UTRA; cl01230 395492002396 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 395492002397 Helix-turn-helix domains; Region: HTH; cl00088 395492002398 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492002399 dimerization interface [polypeptide binding]; other site 395492002400 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 395492002401 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 395492002402 active site 395492002403 non-prolyl cis peptide bond; other site 395492002404 Flavin Reductases; Region: FlaRed; cl00801 395492002405 hypothetical protein; Provisional; Region: PRK07550 395492002406 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 395492002407 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492002408 homodimer interface [polypeptide binding]; other site 395492002409 catalytic residue [active] 395492002410 Arginase family; Region: Arginase; cl00306 395492002411 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 395492002412 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395492002413 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395492002414 cellulose synthase catalytic subunit (UDP-forming); Region: CelA; TIGR03030 395492002415 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 395492002416 DXD motif; other site 395492002417 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 395492002418 transcriptional regulator NanR; Provisional; Region: PRK03837 395492002419 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395492002420 DNA-binding site [nucleotide binding]; DNA binding site 395492002421 FCD domain; Region: FCD; cl11656 395492002422 Ribulose 1,5-bisphosphate carboxylase, large subunit [Carbohydrate transport and metabolism]; Region: RbcL; COG1850 395492002423 Ribulose bisphosphate carboxylase like proteins from nonphototrophic bacteria; Region: RLP_NonPhot; cd08207 395492002424 dimer interface [polypeptide binding]; other site 395492002425 active site 395492002426 catalytic residue [active] 395492002427 metal binding site [ion binding]; metal-binding site 395492002428 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 395492002429 Triosephosphate isomerase (TIM) is a glycolytic enzyme that catalyzes the interconversion of dihydroxyacetone phosphate and D-glyceraldehyde-3-phosphate. The reaction is very efficient and requires neither cofactors nor metal ions. TIM, usually...; Region: TIM; cd00311 395492002430 substrate binding site [chemical binding]; other site 395492002431 dimer interface [polypeptide binding]; other site 395492002432 catalytic triad [active] 395492002433 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 395492002434 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492002435 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 395492002436 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 395492002437 ligand binding site [chemical binding]; other site 395492002438 dimerization interface [polypeptide binding]; other site 395492002439 Predicted periplasmic lipoprotein (DUF2291); Region: DUF2291; cl02395 395492002440 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 395492002441 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 395492002442 Walker A/P-loop; other site 395492002443 ATP binding site [chemical binding]; other site 395492002444 Q-loop/lid; other site 395492002445 ABC transporter signature motif; other site 395492002446 Walker B; other site 395492002447 D-loop; other site 395492002448 H-loop/switch region; other site 395492002449 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 395492002450 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 395492002451 TM-ABC transporter signature motif; other site 395492002452 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395492002453 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492002454 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 395492002455 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 395492002456 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 395492002457 DAK2 domain; Region: Dak2; cl03685 395492002458 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395492002459 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492002460 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492002461 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 395492002462 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492002463 dimer interface [polypeptide binding]; other site 395492002464 conserved gate region; other site 395492002465 putative PBP binding loops; other site 395492002466 ABC-ATPase subunit interface; other site 395492002467 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395492002468 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492002469 dimer interface [polypeptide binding]; other site 395492002470 conserved gate region; other site 395492002471 putative PBP binding loops; other site 395492002472 ABC-ATPase subunit interface; other site 395492002473 Protein of unknown function (DUF4038); Region: DUF4038; pfam13204 395492002474 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395492002475 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395492002476 Walker A/P-loop; other site 395492002477 ATP binding site [chemical binding]; other site 395492002478 Q-loop/lid; other site 395492002479 ABC transporter signature motif; other site 395492002480 Walker B; other site 395492002481 D-loop; other site 395492002482 H-loop/switch region; other site 395492002483 TOBE domain; Region: TOBE_2; cl01440 395492002484 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 395492002485 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395492002486 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 395492002487 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 395492002488 S-adenosylmethionine binding site [chemical binding]; other site 395492002489 Transposase; Region: DEDD_Tnp_IS110; pfam01548 395492002490 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 395492002491 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 395492002492 methionine gamma-lyase; Validated; Region: PRK07049 395492002493 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 395492002494 homodimer interface [polypeptide binding]; other site 395492002495 substrate-cofactor binding pocket; other site 395492002496 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492002497 catalytic residue [active] 395492002498 Cupin domain; Region: Cupin_2; cl09118 395492002499 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492002500 NADH(P)-binding; Region: NAD_binding_10; pfam13460 395492002501 NAD(P) binding site [chemical binding]; other site 395492002502 active site 395492002503 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 395492002504 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 395492002505 dimer interface [polypeptide binding]; other site 395492002506 active site 395492002507 acyl-CoA synthetase; Validated; Region: PRK07638 395492002508 AMP-binding enzyme; Region: AMP-binding; cl15778 395492002509 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 395492002510 active site 395492002511 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 395492002512 2-enoyl thioester reductase-like; Region: ETR_like; cd05282 395492002513 NADP binding site [chemical binding]; other site 395492002514 dimer interface [polypeptide binding]; other site 395492002515 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 395492002516 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 395492002517 dimer interface [polypeptide binding]; other site 395492002518 active site 395492002519 heme binding site [chemical binding]; other site 395492002520 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 395492002521 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 395492002522 Helix-turn-helix domains; Region: HTH; cl00088 395492002523 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 395492002524 dimerization interface [polypeptide binding]; other site 395492002525 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 395492002526 oligomerization interface [polypeptide binding]; other site 395492002527 active site 395492002528 metal binding site [ion binding]; metal-binding site 395492002529 Pantoate-beta-alanine ligase; Region: PanC; cd00560 395492002530 pantoate--beta-alanine ligase; Region: panC; TIGR00018 395492002531 active site 395492002532 ATP-binding site [chemical binding]; other site 395492002533 pantoate-binding site; other site 395492002534 HXXH motif; other site 395492002535 FinO bacterial conjugation repressor domain; the basic protein FinO is part of the the two component FinOP system which is responsible for repressing bacterial conjugation; the FinOP system represses the transfer (tra) operon of the F-plasmid which...; Region: FinO_conjug_rep; cl15270 395492002536 tryptophan tryptophylquinone biosynthesis enzyme MauG; Region: TTQ_mauG; TIGR03791 395492002537 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 395492002538 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395492002539 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395492002540 dimer interface [polypeptide binding]; other site 395492002541 putative CheW interface [polypeptide binding]; other site 395492002542 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 395492002543 ParB-like nuclease domain; Region: ParBc; cl02129 395492002544 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 395492002545 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 395492002546 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 395492002547 P-loop; other site 395492002548 Magnesium ion binding site [ion binding]; other site 395492002549 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 395492002550 Magnesium ion binding site [ion binding]; other site 395492002551 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395492002552 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395492002553 Walker A/P-loop; other site 395492002554 ATP binding site [chemical binding]; other site 395492002555 Q-loop/lid; other site 395492002556 ABC transporter signature motif; other site 395492002557 Walker B; other site 395492002558 D-loop; other site 395492002559 H-loop/switch region; other site 395492002560 TOBE domain; Region: TOBE_2; cl01440 395492002561 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 395492002562 Helix-turn-helix domains; Region: HTH; cl00088 395492002563 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 395492002564 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395492002565 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492002566 dimer interface [polypeptide binding]; other site 395492002567 conserved gate region; other site 395492002568 putative PBP binding loops; other site 395492002569 ABC-ATPase subunit interface; other site 395492002570 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492002571 dimer interface [polypeptide binding]; other site 395492002572 conserved gate region; other site 395492002573 putative PBP binding loops; other site 395492002574 ABC-ATPase subunit interface; other site 395492002575 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492002576 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395492002577 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492002578 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 395492002579 Helix-turn-helix domains; Region: HTH; cl00088 395492002580 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 395492002581 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 395492002582 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 395492002583 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 395492002584 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 395492002585 putative NAD(P) binding site [chemical binding]; other site 395492002586 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395492002587 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 395492002588 putative effector binding pocket; other site 395492002589 dimerization interface [polypeptide binding]; other site 395492002590 Predicted ATPase [General function prediction only]; Region: COG3910 395492002591 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492002592 Walker A/P-loop; other site 395492002593 ATP binding site [chemical binding]; other site 395492002594 ABC transporter signature motif; other site 395492002595 Walker B; other site 395492002596 D-loop; other site 395492002597 H-loop/switch region; other site 395492002598 Integrase core domain; Region: rve; cl01316 395492002599 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 395492002600 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 395492002601 Helix-turn-helix domains; Region: HTH; cl00088 395492002602 Helix-turn-helix domains; Region: HTH; cl00088 395492002603 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 395492002604 classical (c) SDRs; Region: SDR_c; cd05233 395492002605 NAD(P) binding site [chemical binding]; other site 395492002606 active site 395492002607 Helix-turn-helix domains; Region: HTH; cl00088 395492002608 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395492002609 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395492002610 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 395492002611 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492002612 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 395492002613 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 395492002614 Nitrile hydratase beta subunit; Region: NHase_beta; pfam02211 395492002615 nitrile hydratase, beta subunit; Region: nitrile_beta; cl03486 395492002616 nitrile hydratase, alpha subunit; Region: nitrile_alph; TIGR01323 395492002617 NHLP leader peptide domain; Region: TOMM_pelo; cl15464 395492002618 NHLP leader peptide domain; Region: TOMM_pelo; cl15464 395492002619 nitrile hydratase, beta subunit; Region: nitrile_beta; cl03486 395492002620 Probable cobalt transporter subunit (CbtB); Region: CbtB; cl09723 395492002621 Probable cobalt transporter subunit (CbtA); Region: CbtA; cl02266 395492002622 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 395492002623 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 395492002624 conserved cys residue [active] 395492002625 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395492002626 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 395492002627 LysE type translocator; Region: LysE; cl00565 395492002628 cyclase homology domain; Region: CHD; cd07302 395492002629 nucleotidyl binding site; other site 395492002630 metal binding site [ion binding]; metal-binding site 395492002631 dimer interface [polypeptide binding]; other site 395492002632 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 395492002633 glucan exporter ATP-binding protein; Region: chvA; TIGR01192 395492002634 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492002635 ABC transporter signature motif; other site 395492002636 Walker B; other site 395492002637 D-loop; other site 395492002638 H-loop/switch region; other site 395492002639 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492002640 Walker A/P-loop; other site 395492002641 ATP binding site [chemical binding]; other site 395492002642 Q-loop/lid; other site 395492002643 ABC transporter signature motif; other site 395492002644 Walker B; other site 395492002645 D-loop; other site 395492002646 H-loop/switch region; other site 395492002647 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 395492002648 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 395492002649 NAD binding site [chemical binding]; other site 395492002650 catalytic Zn binding site [ion binding]; other site 395492002651 structural Zn binding site [ion binding]; other site 395492002652 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 395492002653 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 395492002654 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 395492002655 putative active site [active] 395492002656 putative active site [active] 395492002657 catalytic site [active] 395492002658 catalytic site [active] 395492002659 Catalytic domain, repeat 2, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_2; cd09143 395492002660 putative active site [active] 395492002661 catalytic site [active] 395492002662 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395492002663 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395492002664 Protein of unknown function (DUF983); Region: DUF983; cl02211 395492002665 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 395492002666 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 395492002667 motif II; other site 395492002668 Response regulator receiver domain; Region: Response_reg; pfam00072 395492002669 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492002670 active site 395492002671 phosphorylation site [posttranslational modification] 395492002672 intermolecular recognition site; other site 395492002673 dimerization interface [polypeptide binding]; other site 395492002674 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492002675 active site 395492002676 phosphorylation site [posttranslational modification] 395492002677 intermolecular recognition site; other site 395492002678 dimerization interface [polypeptide binding]; other site 395492002679 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 395492002680 active site 395492002681 catalytic site [active] 395492002682 substrate binding site [chemical binding]; other site 395492002683 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 395492002684 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 395492002685 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395492002686 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 395492002687 two-component VirA-like sensor kinase; Provisional; Region: PRK13837 395492002688 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 395492002689 ATP binding site [chemical binding]; other site 395492002690 Mg2+ binding site [ion binding]; other site 395492002691 G-X-G motif; other site 395492002692 Response regulator receiver domain; Region: Response_reg; pfam00072 395492002693 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492002694 active site 395492002695 phosphorylation site [posttranslational modification] 395492002696 intermolecular recognition site; other site 395492002697 dimerization interface [polypeptide binding]; other site 395492002698 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 395492002699 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 395492002700 DNA-binding transcriptional regulator MelR; Provisional; Region: PRK10371 395492002701 Cupin domain; Region: Cupin_2; cl09118 395492002702 alpha-galactosidase; Provisional; Region: PRK15076 395492002703 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 395492002704 NAD binding site [chemical binding]; other site 395492002705 sugar binding site [chemical binding]; other site 395492002706 divalent metal binding site [ion binding]; other site 395492002707 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 395492002708 dimer interface [polypeptide binding]; other site 395492002709 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 395492002710 Helix-turn-helix domains; Region: HTH; cl00088 395492002711 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 395492002712 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 395492002713 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 395492002714 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492002715 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492002716 dimer interface [polypeptide binding]; other site 395492002717 conserved gate region; other site 395492002718 putative PBP binding loops; other site 395492002719 ABC-ATPase subunit interface; other site 395492002720 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395492002721 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492002722 dimer interface [polypeptide binding]; other site 395492002723 conserved gate region; other site 395492002724 putative PBP binding loops; other site 395492002725 ABC-ATPase subunit interface; other site 395492002726 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 395492002727 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 395492002728 dimer interface [polypeptide binding]; other site 395492002729 active site 395492002730 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 395492002731 dimer interface [polypeptide binding]; other site 395492002732 active site 395492002733 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; cl09211 395492002734 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395492002735 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395492002736 Walker A/P-loop; other site 395492002737 ATP binding site [chemical binding]; other site 395492002738 Q-loop/lid; other site 395492002739 ABC transporter signature motif; other site 395492002740 Walker B; other site 395492002741 D-loop; other site 395492002742 H-loop/switch region; other site 395492002743 TOBE domain; Region: TOBE_2; cl01440 395492002744 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 395492002745 glucose-6-phosphate 1-dehydrogenase; Provisional; Region: PRK12854 395492002746 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 395492002747 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 395492002748 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 395492002749 DNA binding residues [nucleotide binding] 395492002750 dimerization interface [polypeptide binding]; other site 395492002751 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 395492002752 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492002753 Walker A/P-loop; other site 395492002754 ATP binding site [chemical binding]; other site 395492002755 Q-loop/lid; other site 395492002756 ABC transporter signature motif; other site 395492002757 Walker B; other site 395492002758 D-loop; other site 395492002759 H-loop/switch region; other site 395492002760 TOBE domain; Region: TOBE_2; cl01440 395492002761 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 395492002762 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492002763 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492002764 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492002765 dimer interface [polypeptide binding]; other site 395492002766 conserved gate region; other site 395492002767 putative PBP binding loops; other site 395492002768 ABC-ATPase subunit interface; other site 395492002769 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 395492002770 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492002771 dimer interface [polypeptide binding]; other site 395492002772 conserved gate region; other site 395492002773 putative PBP binding loops; other site 395492002774 ABC-ATPase subunit interface; other site 395492002775 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 395492002776 classical (c) SDRs; Region: SDR_c; cd05233 395492002777 NAD(P) binding site [chemical binding]; other site 395492002778 active site 395492002779 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 395492002780 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 395492002781 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395492002782 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395492002783 dimer interface [polypeptide binding]; other site 395492002784 putative CheW interface [polypeptide binding]; other site 395492002785 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 395492002786 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 395492002787 TM-ABC transporter signature motif; other site 395492002788 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 395492002789 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 395492002790 Walker A/P-loop; other site 395492002791 ATP binding site [chemical binding]; other site 395492002792 Q-loop/lid; other site 395492002793 ABC transporter signature motif; other site 395492002794 Walker B; other site 395492002795 D-loop; other site 395492002796 H-loop/switch region; other site 395492002797 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 395492002798 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395492002799 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492002800 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 395492002801 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 395492002802 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 395492002803 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 395492002804 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cl00630 395492002805 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 395492002806 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 395492002807 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 395492002808 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 395492002809 Alpha-mannosidase [Carbohydrate transport and metabolism]; Region: AMS1; COG0383 395492002810 Glycosyl hydrolases family 38 N-terminal domain; Region: Glyco_hydro_38; pfam01074 395492002811 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; cl08536 395492002812 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 395492002813 Helix-turn-helix domains; Region: HTH; cl00088 395492002814 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 395492002815 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 395492002816 PA14 domain; Region: PA14; cl08459 395492002817 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 395492002818 Fibronectin type III-like domain; Region: Fn3-like; cl15273 395492002819 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 395492002820 ligand binding site [chemical binding]; other site 395492002821 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 395492002822 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 395492002823 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 395492002824 inhibitor site; inhibition site 395492002825 active site 395492002826 dimer interface [polypeptide binding]; other site 395492002827 catalytic residue [active] 395492002828 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 395492002829 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395492002830 Walker A/P-loop; other site 395492002831 ATP binding site [chemical binding]; other site 395492002832 Q-loop/lid; other site 395492002833 ABC transporter signature motif; other site 395492002834 Walker B; other site 395492002835 D-loop; other site 395492002836 H-loop/switch region; other site 395492002837 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395492002838 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 395492002839 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395492002840 Walker A/P-loop; other site 395492002841 ATP binding site [chemical binding]; other site 395492002842 Q-loop/lid; other site 395492002843 ABC transporter signature motif; other site 395492002844 Walker B; other site 395492002845 D-loop; other site 395492002846 H-loop/switch region; other site 395492002847 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395492002848 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 395492002849 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 395492002850 inhibitor site; inhibition site 395492002851 active site 395492002852 dimer interface [polypeptide binding]; other site 395492002853 catalytic residue [active] 395492002854 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 395492002855 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492002856 dimer interface [polypeptide binding]; other site 395492002857 conserved gate region; other site 395492002858 putative PBP binding loops; other site 395492002859 ABC-ATPase subunit interface; other site 395492002860 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 395492002861 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492002862 dimer interface [polypeptide binding]; other site 395492002863 conserved gate region; other site 395492002864 putative PBP binding loops; other site 395492002865 ABC-ATPase subunit interface; other site 395492002866 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 395492002867 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 395492002868 Transcriptional regulators [Transcription]; Region: FadR; COG2186 395492002869 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395492002870 DNA-binding site [nucleotide binding]; DNA binding site 395492002871 FCD domain; Region: FCD; cl11656 395492002872 ferrioxamine B receptor precursor protein; Provisional; Region: PRK14049 395492002873 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 395492002874 N-terminal plug; other site 395492002875 ligand-binding site [chemical binding]; other site 395492002876 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 395492002877 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 395492002878 NADP binding site [chemical binding]; other site 395492002879 active site 395492002880 steroid binding site; other site 395492002881 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 395492002882 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 395492002883 ABC-ATPase subunit interface; other site 395492002884 dimer interface [polypeptide binding]; other site 395492002885 putative PBP binding regions; other site 395492002886 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 395492002887 ABC-ATPase subunit interface; other site 395492002888 dimer interface [polypeptide binding]; other site 395492002889 putative PBP binding regions; other site 395492002890 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 395492002891 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 395492002892 siderophore binding site; other site 395492002893 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 395492002894 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395492002895 Coenzyme A binding pocket [chemical binding]; other site 395492002896 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 395492002897 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395492002898 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 395492002899 MatE; Region: MatE; cl10513 395492002900 putative efflux protein, MATE family; Region: matE; TIGR00797 395492002901 MatE; Region: MatE; cl10513 395492002902 hypothetical protein; Provisional; Region: PRK05968 395492002903 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 395492002904 homodimer interface [polypeptide binding]; other site 395492002905 substrate-cofactor binding pocket; other site 395492002906 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492002907 catalytic residue [active] 395492002908 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 395492002909 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 395492002910 MbtH-like protein; Region: MbtH; cl01279 395492002911 peptide synthase; Provisional; Region: PRK12467 395492002912 AMP-binding enzyme; Region: AMP-binding; cl15778 395492002913 Phosphopantetheine attachment site; Region: PP-binding; cl09936 395492002914 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 395492002915 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 395492002916 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492002917 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 395492002918 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 395492002919 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 395492002920 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 395492002921 dimerization interface [polypeptide binding]; other site 395492002922 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395492002923 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395492002924 dimer interface [polypeptide binding]; other site 395492002925 putative CheW interface [polypeptide binding]; other site 395492002926 Protein of unknown function (DUF1109); Region: DUF1109; cl02071 395492002927 RNA polymerase sigma factor; Provisional; Region: PRK12536 395492002928 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395492002929 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 395492002930 DNA binding residues [nucleotide binding] 395492002931 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 395492002932 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 395492002933 bacterial subgroup of the sulfite oxidase (SO) family of molybdopterin binding domains. This domain is found in a variety of oxidoreductases. Common features of all known members of this family, like sulfite oxidase and nitrite reductase, are that they...; Region: bact_SO_family_Moco; cd02108 395492002934 Moco binding site; other site 395492002935 metal coordination site [ion binding]; other site 395492002936 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395492002937 DNA-binding site [nucleotide binding]; DNA binding site 395492002938 FCD domain; Region: FCD; cl11656 395492002939 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 395492002940 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 395492002941 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 395492002942 DctM-like transporters; Region: DctM; pfam06808 395492002943 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 395492002944 L-idonate 5-dehydrogenase; Region: idonate-5-DH; cd08232 395492002945 L-idonate 5-dehydrogenase; Provisional; Region: PRK09880 395492002946 putative NAD(P) binding site [chemical binding]; other site 395492002947 catalytic Zn binding site [ion binding]; other site 395492002948 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492002949 FAD dependent oxidoreductase; Region: DAO; pfam01266 395492002950 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 395492002951 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 395492002952 inhibitor site; inhibition site 395492002953 active site 395492002954 dimer interface [polypeptide binding]; other site 395492002955 catalytic residue [active] 395492002956 Transcriptional regulators [Transcription]; Region: FadR; COG2186 395492002957 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395492002958 DNA-binding site [nucleotide binding]; DNA binding site 395492002959 FCD domain; Region: FCD; cl11656 395492002960 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395492002961 metal binding site [ion binding]; metal-binding site 395492002962 active site 395492002963 I-site; other site 395492002964 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 395492002965 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 395492002966 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 395492002967 Histidine kinase; Region: HisKA_2; cl06527 395492002968 Helix-turn-helix domains; Region: HTH; cl00088 395492002969 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 395492002970 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 395492002971 active site 395492002972 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 395492002973 dimer interface [polypeptide binding]; other site 395492002974 substrate binding site [chemical binding]; other site 395492002975 catalytic residues [active] 395492002976 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 395492002977 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492002978 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395492002979 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 395492002980 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 395492002981 inhibitor-cofactor binding pocket; inhibition site 395492002982 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492002983 catalytic residue [active] 395492002984 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 395492002985 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 395492002986 non-specific DNA binding site [nucleotide binding]; other site 395492002987 salt bridge; other site 395492002988 sequence-specific DNA binding site [nucleotide binding]; other site 395492002989 Cupin domain; Region: Cupin_2; cl09118 395492002990 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK06476 395492002991 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492002992 Transcriptional regulators [Transcription]; Region: GntR; COG1802 395492002993 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395492002994 DNA-binding site [nucleotide binding]; DNA binding site 395492002995 FCD domain; Region: FCD; cl11656 395492002996 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 395492002997 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395492002998 substrate binding pocket [chemical binding]; other site 395492002999 membrane-bound complex binding site; other site 395492003000 hinge residues; other site 395492003001 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 395492003002 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 395492003003 Walker A/P-loop; other site 395492003004 ATP binding site [chemical binding]; other site 395492003005 Q-loop/lid; other site 395492003006 ABC transporter signature motif; other site 395492003007 Walker B; other site 395492003008 D-loop; other site 395492003009 H-loop/switch region; other site 395492003010 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 395492003011 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492003012 dimer interface [polypeptide binding]; other site 395492003013 conserved gate region; other site 395492003014 putative PBP binding loops; other site 395492003015 ABC-ATPase subunit interface; other site 395492003016 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 395492003017 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492003018 dimer interface [polypeptide binding]; other site 395492003019 conserved gate region; other site 395492003020 putative PBP binding loops; other site 395492003021 ABC-ATPase subunit interface; other site 395492003022 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 395492003023 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 395492003024 inhibitor site; inhibition site 395492003025 active site 395492003026 dimer interface [polypeptide binding]; other site 395492003027 catalytic residue [active] 395492003028 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 395492003029 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492003030 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395492003031 Arabidopsis betaine aldehyde dehydrogenase 1 and 2, ALDH family 10A8 and 10A9-like; Region: ALDH_F10_BADH; cd07110 395492003032 NAD(P) binding site [chemical binding]; other site 395492003033 catalytic residues [active] 395492003034 catalytic residues [active] 395492003035 Proline racemase; Region: Pro_racemase; pfam05544 395492003036 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 395492003037 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 395492003038 classical (c) SDRs; Region: SDR_c; cd05233 395492003039 NAD(P) binding site [chemical binding]; other site 395492003040 active site 395492003041 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 395492003042 classical (c) SDRs; Region: SDR_c; cd05233 395492003043 NAD(P) binding site [chemical binding]; other site 395492003044 active site 395492003045 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395492003046 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395492003047 DNA binding site [nucleotide binding] 395492003048 domain linker motif; other site 395492003049 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_2; cd06278 395492003050 putative ligand binding site [chemical binding]; other site 395492003051 putative dimerization interface [polypeptide binding]; other site 395492003052 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_4; cd06312 395492003053 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 395492003054 putative ligand binding site [chemical binding]; other site 395492003055 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 395492003056 TM-ABC transporter signature motif; other site 395492003057 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 395492003058 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 395492003059 Walker A/P-loop; other site 395492003060 ATP binding site [chemical binding]; other site 395492003061 Q-loop/lid; other site 395492003062 ABC transporter signature motif; other site 395492003063 Walker B; other site 395492003064 D-loop; other site 395492003065 H-loop/switch region; other site 395492003066 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 395492003067 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 395492003068 Metal-binding active site; metal-binding site 395492003069 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395492003070 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492003071 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 395492003072 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 395492003073 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 395492003074 Transcriptional regulators [Transcription]; Region: GntR; COG1802 395492003075 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395492003076 DNA-binding site [nucleotide binding]; DNA binding site 395492003077 FCD domain; Region: FCD; cl11656 395492003078 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 395492003079 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 395492003080 TadE-like protein; Region: TadE; cl10688 395492003081 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 395492003082 TadE-like protein; Region: TadE; cl10688 395492003083 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 395492003084 Helix-turn-helix domains; Region: HTH; cl00088 395492003085 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 395492003086 dimerization interface [polypeptide binding]; other site 395492003087 substrate binding pocket [chemical binding]; other site 395492003088 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 395492003089 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395492003090 substrate binding pocket [chemical binding]; other site 395492003091 membrane-bound complex binding site; other site 395492003092 hinge residues; other site 395492003093 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 395492003094 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492003095 dimer interface [polypeptide binding]; other site 395492003096 conserved gate region; other site 395492003097 putative PBP binding loops; other site 395492003098 ABC-ATPase subunit interface; other site 395492003099 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 395492003100 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 395492003101 Walker A/P-loop; other site 395492003102 ATP binding site [chemical binding]; other site 395492003103 Q-loop/lid; other site 395492003104 ABC transporter signature motif; other site 395492003105 Walker B; other site 395492003106 D-loop; other site 395492003107 H-loop/switch region; other site 395492003108 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 395492003109 Arginase family; Region: Arginase; cl00306 395492003110 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 395492003111 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 395492003112 metal binding site [ion binding]; metal-binding site 395492003113 putative dimer interface [polypeptide binding]; other site 395492003114 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 395492003115 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395492003116 DNA-binding site [nucleotide binding]; DNA binding site 395492003117 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 395492003118 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492003119 homodimer interface [polypeptide binding]; other site 395492003120 catalytic residue [active] 395492003121 tryptophanase/L-cysteine desulfhydrase, PLP-dependent; Provisional; Region: tnaA; PRK13238 395492003122 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 395492003123 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395492003124 catalytic residue [active] 395492003125 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395492003126 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 395492003127 putative active site [active] 395492003128 heme pocket [chemical binding]; other site 395492003129 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395492003130 putative active site [active] 395492003131 heme pocket [chemical binding]; other site 395492003132 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395492003133 metal binding site [ion binding]; metal-binding site 395492003134 active site 395492003135 I-site; other site 395492003136 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 395492003137 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 395492003138 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 395492003139 RNA polymerase sigma factor; Provisional; Region: PRK11922 395492003140 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395492003141 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 395492003142 DNA binding residues [nucleotide binding] 395492003143 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 395492003144 Domain of unknown function (DUF305); Region: DUF305; cl15795 395492003145 Protein of unknown function, DUF488; Region: DUF488; cl01246 395492003146 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395492003147 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 395492003148 NAD(P) binding site [chemical binding]; other site 395492003149 catalytic residues [active] 395492003150 alpha hydroxysteroid dehydrogenase (3alpha_HSD), classical (c) SDRs; Region: 3alpha_HSD_SDR_c; cd05328 395492003151 NAD binding site [chemical binding]; other site 395492003152 3-alpha-hydroxysteroid dehydrogenase; Provisional; Region: PRK12428 395492003153 active site 395492003154 homodimer interface [polypeptide binding]; other site 395492003155 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 395492003156 TM-ABC transporter signature motif; other site 395492003157 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 395492003158 TM-ABC transporter signature motif; other site 395492003159 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 395492003160 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 395492003161 Walker A/P-loop; other site 395492003162 ATP binding site [chemical binding]; other site 395492003163 Q-loop/lid; other site 395492003164 ABC transporter signature motif; other site 395492003165 Walker B; other site 395492003166 D-loop; other site 395492003167 H-loop/switch region; other site 395492003168 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 395492003169 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 395492003170 Walker A/P-loop; other site 395492003171 ATP binding site [chemical binding]; other site 395492003172 Q-loop/lid; other site 395492003173 ABC transporter signature motif; other site 395492003174 Walker B; other site 395492003175 D-loop; other site 395492003176 H-loop/switch region; other site 395492003177 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 395492003178 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_4; cd06337 395492003179 putative ligand binding site [chemical binding]; other site 395492003180 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395492003181 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 395492003182 NAD(P) binding site [chemical binding]; other site 395492003183 catalytic residues [active] 395492003184 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 395492003185 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395492003186 Subgroup of sulfite oxidase (SO) family molybdopterin binding domains that contains conserved dimerization domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate...; Region: SO_family_Moco_dimer; cd02110 395492003187 Moco binding site; other site 395492003188 metal coordination site [ion binding]; other site 395492003189 dimerization interface [polypeptide binding]; other site 395492003190 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492003191 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 395492003192 dimerization interface [polypeptide binding]; other site 395492003193 putative DNA binding site [nucleotide binding]; other site 395492003194 putative Zn2+ binding site [ion binding]; other site 395492003195 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_9; cd07826 395492003196 putative hydrophobic ligand binding site [chemical binding]; other site 395492003197 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 395492003198 cyclase homology domain; Region: CHD; cd07302 395492003199 nucleotidyl binding site; other site 395492003200 metal binding site [ion binding]; metal-binding site 395492003201 dimer interface [polypeptide binding]; other site 395492003202 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 395492003203 Helix-turn-helix domains; Region: HTH; cl00088 395492003204 acyl-CoA synthetase; Validated; Region: PRK09088 395492003205 AMP-binding enzyme; Region: AMP-binding; cl15778 395492003206 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 395492003207 p-hydroxycinnamoyl CoA hydratase/lyase; Validated; Region: PRK09120 395492003208 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 395492003209 substrate binding site [chemical binding]; other site 395492003210 oxyanion hole (OAH) forming residues; other site 395492003211 trimer interface [polypeptide binding]; other site 395492003212 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 395492003213 Benzyl alcohol dehydrogenase; Region: benzyl_alcohol_DH; cd08278 395492003214 catalytic Zn binding site [ion binding]; other site 395492003215 NAD binding site [chemical binding]; other site 395492003216 structural Zn binding site [ion binding]; other site 395492003217 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 395492003218 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 395492003219 NAD(P) binding site [chemical binding]; other site 395492003220 catalytic residues [active] 395492003221 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 395492003222 PAS fold; Region: PAS_4; pfam08448 395492003223 putative diguanylate cyclase; Provisional; Region: PRK09776 395492003224 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395492003225 metal binding site [ion binding]; metal-binding site 395492003226 active site 395492003227 I-site; other site 395492003228 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 395492003229 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 395492003230 putative molybdopterin cofactor binding site [chemical binding]; other site 395492003231 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 395492003232 putative molybdopterin cofactor binding site; other site 395492003233 Helix-turn-helix domain; Region: HTH_18; pfam12833 395492003234 This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these...; Region: ABC_Pro_Gly_Bertaine; cd03294 395492003235 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 395492003236 Walker A/P-loop; other site 395492003237 ATP binding site [chemical binding]; other site 395492003238 Q-loop/lid; other site 395492003239 ABC transporter signature motif; other site 395492003240 Walker B; other site 395492003241 D-loop; other site 395492003242 H-loop/switch region; other site 395492003243 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 395492003244 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492003245 dimer interface [polypeptide binding]; other site 395492003246 conserved gate region; other site 395492003247 putative PBP binding loops; other site 395492003248 ABC-ATPase subunit interface; other site 395492003249 NMT1-like family; Region: NMT1_2; cl15260 395492003250 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 395492003251 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492003252 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395492003253 Helix-turn-helix domains; Region: HTH; cl00088 395492003254 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 395492003255 Old yellow enzyme (OYE)-related FMN binding domain, group 3. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_3_FMN; cd04734 395492003256 putative active site [active] 395492003257 putative FMN binding site [chemical binding]; other site 395492003258 putative substrate binding site [chemical binding]; other site 395492003259 putative catalytic residue [active] 395492003260 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492003261 Cupin domain; Region: Cupin_2; cl09118 395492003262 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 395492003263 Ligand binding site [chemical binding]; other site 395492003264 Electron transfer flavoprotein domain; Region: ETF; pfam01012 395492003265 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 395492003266 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 395492003267 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 395492003268 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 395492003269 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 395492003270 substrate binding site [chemical binding]; other site 395492003271 catalytic Zn binding site [ion binding]; other site 395492003272 NAD binding site [chemical binding]; other site 395492003273 structural Zn binding site [ion binding]; other site 395492003274 dimer interface [polypeptide binding]; other site 395492003275 Predicted esterase [General function prediction only]; Region: COG0627 395492003276 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395492003277 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 395492003278 Domain of unknown function (DUF4415); Region: DUF4415; cl01401 395492003279 ParB-like nuclease domain; Region: ParBc; cl02129 395492003280 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 395492003281 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 395492003282 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492003283 dimer interface [polypeptide binding]; other site 395492003284 conserved gate region; other site 395492003285 putative PBP binding loops; other site 395492003286 ABC-ATPase subunit interface; other site 395492003287 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 395492003288 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492003289 dimer interface [polypeptide binding]; other site 395492003290 conserved gate region; other site 395492003291 putative PBP binding loops; other site 395492003292 ABC-ATPase subunit interface; other site 395492003293 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395492003294 Helix-turn-helix domains; Region: HTH; cl00088 395492003295 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492003296 dimerization interface [polypeptide binding]; other site 395492003297 Domain of unknown function (DUF4365); Region: DUF4365; pfam14280 395492003298 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 395492003299 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 395492003300 cofactor binding site; other site 395492003301 DNA binding site [nucleotide binding] 395492003302 substrate interaction site [chemical binding]; other site 395492003303 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 395492003304 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 395492003305 Thymidylate synthase complementing protein; Region: Thy1; cl03630 395492003306 AAA domain; Region: AAA_21; pfam13304 395492003307 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492003308 ABC transporter signature motif; other site 395492003309 Predicted ATP-binding protein involved in virulence [General function prediction only]; Region: COG3950 395492003310 Walker B; other site 395492003311 D-loop; other site 395492003312 H-loop/switch region; other site 395492003313 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 395492003314 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 395492003315 putative active site [active] 395492003316 putative metal binding site [ion binding]; other site 395492003317 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 395492003318 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395492003319 substrate binding pocket [chemical binding]; other site 395492003320 membrane-bound complex binding site; other site 395492003321 hinge residues; other site 395492003322 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 395492003323 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492003324 conserved gate region; other site 395492003325 dimer interface [polypeptide binding]; other site 395492003326 putative PBP binding loops; other site 395492003327 ABC-ATPase subunit interface; other site 395492003328 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 395492003329 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492003330 dimer interface [polypeptide binding]; other site 395492003331 conserved gate region; other site 395492003332 putative PBP binding loops; other site 395492003333 ABC-ATPase subunit interface; other site 395492003334 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 395492003335 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 395492003336 Walker A/P-loop; other site 395492003337 ATP binding site [chemical binding]; other site 395492003338 Q-loop/lid; other site 395492003339 ABC transporter signature motif; other site 395492003340 Walker B; other site 395492003341 D-loop; other site 395492003342 H-loop/switch region; other site 395492003343 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 395492003344 active site 395492003345 homotetramer interface [polypeptide binding]; other site 395492003346 homodimer interface [polypeptide binding]; other site 395492003347 hypothetical protein; Validated; Region: PRK09104 395492003348 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 395492003349 metal binding site [ion binding]; metal-binding site 395492003350 putative dimer interface [polypeptide binding]; other site 395492003351 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 395492003352 Transcriptional regulator [Transcription]; Region: IclR; COG1414 395492003353 Helix-turn-helix domains; Region: HTH; cl00088 395492003354 Bacterial transcriptional regulator; Region: IclR; pfam01614 395492003355 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 395492003356 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 395492003357 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395492003358 catalytic residue [active] 395492003359 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 395492003360 Aspartase; Region: Aspartase; cd01357 395492003361 active sites [active] 395492003362 tetramer interface [polypeptide binding]; other site 395492003363 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 395492003364 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 395492003365 substrate binding site [chemical binding]; other site 395492003366 catalytic Zn binding site [ion binding]; other site 395492003367 NAD binding site [chemical binding]; other site 395492003368 structural Zn binding site [ion binding]; other site 395492003369 dimer interface [polypeptide binding]; other site 395492003370 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 395492003371 hypothetical protein; Provisional; Region: PRK07482 395492003372 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 395492003373 inhibitor-cofactor binding pocket; inhibition site 395492003374 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492003375 catalytic residue [active] 395492003376 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395492003377 Uncharacterized ALDH (y4uC) with similarity to Tortula ruralis aldehyde dehydrogenase ALDH21A1; Region: ALDH_y4uC; cd07149 395492003378 NAD(P) binding site [chemical binding]; other site 395492003379 catalytic residues [active] 395492003380 Nitrogen fixation protein of unknown function; Region: Nif11; cl06756 395492003381 bacteriocin maturation radical SAM protein 1; Region: rSAM_ocin_1; TIGR03975 395492003382 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 395492003383 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 395492003384 putative ligand binding site [chemical binding]; other site 395492003385 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 395492003386 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 395492003387 Helix-turn-helix domains; Region: HTH; cl00088 395492003388 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 395492003389 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492003390 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 395492003391 NAD(P) binding site [chemical binding]; other site 395492003392 active site 395492003393 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395492003394 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395492003395 Walker A/P-loop; other site 395492003396 ATP binding site [chemical binding]; other site 395492003397 Q-loop/lid; other site 395492003398 ABC transporter signature motif; other site 395492003399 Walker B; other site 395492003400 D-loop; other site 395492003401 H-loop/switch region; other site 395492003402 TOBE domain; Region: TOBE_2; cl01440 395492003403 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395492003404 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492003405 dimer interface [polypeptide binding]; other site 395492003406 conserved gate region; other site 395492003407 putative PBP binding loops; other site 395492003408 ABC-ATPase subunit interface; other site 395492003409 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 395492003410 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492003411 conserved gate region; other site 395492003412 putative PBP binding loops; other site 395492003413 ABC-ATPase subunit interface; other site 395492003414 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395492003415 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492003416 ADP-specific Phosphofructokinase/Glucokinase conserved region; Region: ADP_PFK_GK; cl14060 395492003417 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 395492003418 catalytic residue [active] 395492003419 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 395492003420 HTH-like domain; Region: HTH_21; pfam13276 395492003421 Integrase core domain; Region: rve; cl01316 395492003422 Integrase core domain; Region: rve_3; cl15866 395492003423 Helix-turn-helix domains; Region: HTH; cl00088 395492003424 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 395492003425 Helix-turn-helix domains; Region: HTH; cl00088 395492003426 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 395492003427 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395492003428 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492003429 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 395492003430 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395492003431 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492003432 putative PBP binding loops; other site 395492003433 ABC-ATPase subunit interface; other site 395492003434 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395492003435 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395492003436 Walker A/P-loop; other site 395492003437 ATP binding site [chemical binding]; other site 395492003438 Q-loop/lid; other site 395492003439 ABC transporter signature motif; other site 395492003440 Walker B; other site 395492003441 D-loop; other site 395492003442 H-loop/switch region; other site 395492003443 TOBE domain; Region: TOBE_2; cl01440 395492003444 TOBE domain; Region: TOBE_2; cl01440 395492003445 short chain dehydrogenase; Provisional; Region: PRK07060 395492003446 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492003447 NAD(P) binding site [chemical binding]; other site 395492003448 active site 395492003449 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 395492003450 Helix-turn-helix domains; Region: HTH; cl00088 395492003451 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492003452 dimerization interface [polypeptide binding]; other site 395492003453 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 395492003454 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492003455 Walker A/P-loop; other site 395492003456 ATP binding site [chemical binding]; other site 395492003457 Q-loop/lid; other site 395492003458 ABC transporter signature motif; other site 395492003459 Walker B; other site 395492003460 D-loop; other site 395492003461 H-loop/switch region; other site 395492003462 TOBE domain; Region: TOBE_2; cl01440 395492003463 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 395492003464 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 395492003465 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492003466 FAD dependent oxidoreductase; Region: DAO; pfam01266 395492003467 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 395492003468 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492003469 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492003470 dimer interface [polypeptide binding]; other site 395492003471 conserved gate region; other site 395492003472 putative PBP binding loops; other site 395492003473 ABC-ATPase subunit interface; other site 395492003474 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492003475 dimer interface [polypeptide binding]; other site 395492003476 conserved gate region; other site 395492003477 putative PBP binding loops; other site 395492003478 ABC-ATPase subunit interface; other site 395492003479 choline dehydrogenase; Validated; Region: PRK02106 395492003480 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492003481 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 395492003482 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 395492003483 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395492003484 NAD binding site [chemical binding]; other site 395492003485 catalytic residues [active] 395492003486 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395492003487 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 395492003488 tetramerization interface [polypeptide binding]; other site 395492003489 NAD(P) binding site [chemical binding]; other site 395492003490 catalytic residues [active] 395492003491 tartrate dehydrogenase; Provisional; Region: PRK08194 395492003492 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 395492003493 Cupin domain; Region: Cupin_2; cl09118 395492003494 Helix-turn-helix domains; Region: HTH; cl00088 395492003495 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 395492003496 NMT1-like family; Region: NMT1_2; cl15260 395492003497 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 395492003498 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395492003499 DNA-binding site [nucleotide binding]; DNA binding site 395492003500 UTRA domain; Region: UTRA; cl01230 395492003501 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492003502 dimer interface [polypeptide binding]; other site 395492003503 conserved gate region; other site 395492003504 putative PBP binding loops; other site 395492003505 ABC-ATPase subunit interface; other site 395492003506 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 395492003507 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 395492003508 Walker A/P-loop; other site 395492003509 ATP binding site [chemical binding]; other site 395492003510 Q-loop/lid; other site 395492003511 ABC transporter signature motif; other site 395492003512 Walker B; other site 395492003513 D-loop; other site 395492003514 H-loop/switch region; other site 395492003515 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 395492003516 histidinol dehydrogenase; Region: hisD; TIGR00069 395492003517 NAD binding site [chemical binding]; other site 395492003518 dimerization interface [polypeptide binding]; other site 395492003519 product binding site; other site 395492003520 substrate binding site [chemical binding]; other site 395492003521 zinc binding site [ion binding]; other site 395492003522 catalytic residues [active] 395492003523 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 395492003524 Moco binding site; other site 395492003525 metal coordination site [ion binding]; other site 395492003526 Predicted amidohydrolase [General function prediction only]; Region: COG0388 395492003527 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 395492003528 putative active site [active] 395492003529 catalytic triad [active] 395492003530 putative dimer interface [polypeptide binding]; other site 395492003531 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 395492003532 homotrimer interaction site [polypeptide binding]; other site 395492003533 putative active site [active] 395492003534 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395492003535 Helix-turn-helix domains; Region: HTH; cl00088 395492003536 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492003537 dimerization interface [polypeptide binding]; other site 395492003538 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 395492003539 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 395492003540 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395492003541 catalytic residue [active] 395492003542 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492003543 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 395492003544 Low-spin heme binding site [chemical binding]; other site 395492003545 Putative water exit pathway; other site 395492003546 Binuclear center (active site) [active] 395492003547 Putative proton exit pathway; other site 395492003548 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 395492003549 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 395492003550 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 395492003551 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 395492003552 Cytochrome c; Region: Cytochrom_C; cl11414 395492003553 Cytochrome c; Region: Cytochrom_C; cl11414 395492003554 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 395492003555 4Fe-4S binding domain; Region: Fer4_5; pfam12801 395492003556 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 395492003557 FixH; Region: FixH; cl01254 395492003558 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 395492003559 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 395492003560 metal-binding site [ion binding] 395492003561 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 395492003562 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 395492003563 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 395492003564 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 395492003565 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 395492003566 ligand binding site [chemical binding]; other site 395492003567 flexible hinge region; other site 395492003568 Helix-turn-helix domains; Region: HTH; cl00088 395492003569 OpgC protein; Region: OpgC_C; cl00792 395492003570 Acyltransferase family; Region: Acyl_transf_3; pfam01757 395492003571 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395492003572 Helix-turn-helix domains; Region: HTH; cl00088 395492003573 The C-terminal substsrate binding domain of NodD family of LysR-type transcriptional regulators that regulates the expression of nodulation (nod) genes; contains the type 2 periplasmic binding fold; Region: PBP2_NodD; cd08462 395492003574 putative substrate binding pocket [chemical binding]; other site 395492003575 putative dimerization interface [polypeptide binding]; other site 395492003576 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 395492003577 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 395492003578 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 395492003579 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 395492003580 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 395492003581 putative active site [active] 395492003582 putative catalytic site [active] 395492003583 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 395492003584 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 395492003585 glutaminase active site [active] 395492003586 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 395492003587 dimer interface [polypeptide binding]; other site 395492003588 active site 395492003589 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 395492003590 dimer interface [polypeptide binding]; other site 395492003591 active site 395492003592 maltose O-acetyltransferase; Provisional; Region: PRK10092 395492003593 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 395492003594 active site 395492003595 substrate binding site [chemical binding]; other site 395492003596 trimer interface [polypeptide binding]; other site 395492003597 CoA binding site [chemical binding]; other site 395492003598 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 395492003599 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 395492003600 dimer interface [polypeptide binding]; other site 395492003601 active site 395492003602 Phosphopantetheine attachment site; Region: PP-binding; cl09936 395492003603 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395492003604 Helix-turn-helix domains; Region: HTH; cl00088 395492003605 The C-terminal substsrate binding domain of NodD family of LysR-type transcriptional regulators that regulates the expression of nodulation (nod) genes; contains the type 2 periplasmic binding fold; Region: PBP2_NodD; cd08462 395492003606 putative substrate binding pocket [chemical binding]; other site 395492003607 putative dimerization interface [polypeptide binding]; other site 395492003608 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395492003609 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 395492003610 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 395492003611 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 395492003612 DXD motif; other site 395492003613 nodulation factor exporter subunit NodI; Provisional; Region: PRK13536 395492003614 The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency; Region: ABC_subfamily_A; cd03263 395492003615 Walker A/P-loop; other site 395492003616 ATP binding site [chemical binding]; other site 395492003617 Q-loop/lid; other site 395492003618 ABC transporter signature motif; other site 395492003619 Walker B; other site 395492003620 D-loop; other site 395492003621 H-loop/switch region; other site 395492003622 ABC-2 type transporter; Region: ABC2_membrane; cl11417 395492003623 NifT/FixU protein; Region: NifT; cl02351 395492003624 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 395492003625 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 395492003626 Radical SAM superfamily; Region: Radical_SAM; pfam04055 395492003627 FeS/SAM binding site; other site 395492003628 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 395492003629 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 395492003630 Walker A motif; other site 395492003631 ATP binding site [chemical binding]; other site 395492003632 Walker B motif; other site 395492003633 arginine finger; other site 395492003634 Helix-turn-helix domains; Region: HTH; cl00088 395492003635 oxidoreductase; Provisional; Region: PRK10015 395492003636 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492003637 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 395492003638 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 395492003639 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 395492003640 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 395492003641 Ligand binding site [chemical binding]; other site 395492003642 Electron transfer flavoprotein domain; Region: ETF; pfam01012 395492003643 nitrogenase reductase; Reviewed; Region: nifH; PRK13234 395492003644 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 395492003645 Nucleotide-binding sites [chemical binding]; other site 395492003646 Walker A motif; other site 395492003647 Switch I region of nucleotide binding site; other site 395492003648 Fe4S4 binding sites [ion binding]; other site 395492003649 Switch II region of nucleotide binding site; other site 395492003650 Nitrogenase molybdenum-iron protein, alpha and beta chains [Energy production and conversion]; Region: NifD; COG2710 395492003651 Nitrogenase_MoFe_alpha_II: Nitrogenase MoFe protein, beta subunit. A group of proteins similar to the alpha subunit of the MoFe protein of the molybdenum (Mo-) nitrogenase. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to...; Region: Nitrogenase_MoFe_alpha; cd01976 395492003652 MoFe protein alpha/beta subunit interactions; other site 395492003653 Alpha subunit P cluster binding residues; other site 395492003654 FeMoco binding residues [chemical binding]; other site 395492003655 MoFe protein alpha subunit/Fe protein contacts; other site 395492003656 MoFe protein dimer/ dimer interactions; other site 395492003657 nitrogenase molybdenum-iron protein beta chain; Region: nifK; TIGR01286 395492003658 Domain of unknown function (DUF3364); Region: DUF3364; pfam11844 395492003659 Nitrogenase_MoFe_beta: Nitrogenase MoFe protein, beta subunit. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Molybdenum (Mo-) nitrogenase is the most widespread and best characterized of these systems; Region: Nitrogenase_MoFe_beta; cd01974 395492003660 MoFe protein beta/alpha subunit interactions; other site 395492003661 Beta subunit P cluster binding residues; other site 395492003662 MoFe protein beta subunit/Fe protein contacts; other site 395492003663 MoFe protein dimer/ dimer interactions; other site 395492003664 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 395492003665 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 395492003666 Nitrogenase_nifN1: A subgroup of the NifN subunit of the NifEN complex: NifN forms an alpha2beta2 tetramer with NifE. NifN and nifE are structurally homologous to nitrogenase MoFe protein beta and alpha subunits respectively. NifEN participates in the...; Region: Nitrogenase_NifN_1; cd01966 395492003667 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 395492003668 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 395492003669 Helix-turn-helix domains; Region: HTH; cl00088 395492003670 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 395492003671 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 395492003672 dihydrodipicolinate synthase; Region: dapA; TIGR00674 395492003673 dimer interface [polypeptide binding]; other site 395492003674 active site 395492003675 catalytic residue [active] 395492003676 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395492003677 Uncharacterized ALDH (y4uC) with similarity to Tortula ruralis aldehyde dehydrogenase ALDH21A1; Region: ALDH_y4uC; cd07149 395492003678 NAD(P) binding site [chemical binding]; other site 395492003679 catalytic residues [active] 395492003680 homoserine dehydrogenase; Provisional; Region: PRK06270 395492003681 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492003682 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 395492003683 Helix-turn-helix domains; Region: HTH; cl00088 395492003684 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 395492003685 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 395492003686 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 395492003687 homodimer interface [polypeptide binding]; other site 395492003688 substrate-cofactor binding pocket; other site 395492003689 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492003690 catalytic residue [active] 395492003691 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 395492003692 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492003693 dimer interface [polypeptide binding]; other site 395492003694 conserved gate region; other site 395492003695 putative PBP binding loops; other site 395492003696 ABC-ATPase subunit interface; other site 395492003697 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492003698 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 395492003699 dimer interface [polypeptide binding]; other site 395492003700 conserved gate region; other site 395492003701 putative PBP binding loops; other site 395492003702 ABC-ATPase subunit interface; other site 395492003703 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395492003704 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 395492003705 substrate binding pocket [chemical binding]; other site 395492003706 membrane-bound complex binding site; other site 395492003707 hinge residues; other site 395492003708 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 395492003709 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 395492003710 Walker A/P-loop; other site 395492003711 ATP binding site [chemical binding]; other site 395492003712 Q-loop/lid; other site 395492003713 ABC transporter signature motif; other site 395492003714 Walker B; other site 395492003715 D-loop; other site 395492003716 H-loop/switch region; other site 395492003717 B3/4 domain; Region: B3_4; cl11458 395492003718 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 395492003719 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 395492003720 non-specific DNA binding site [nucleotide binding]; other site 395492003721 salt bridge; other site 395492003722 sequence-specific DNA binding site [nucleotide binding]; other site 395492003723 Cupin domain; Region: Cupin_2; cl09118 395492003724 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 395492003725 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 395492003726 metal binding site [ion binding]; metal-binding site 395492003727 putative dimer interface [polypeptide binding]; other site 395492003728 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 395492003729 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395492003730 catalytic residue [active] 395492003731 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 395492003732 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 395492003733 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395492003734 DNA-binding site [nucleotide binding]; DNA binding site 395492003735 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 395492003736 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492003737 homodimer interface [polypeptide binding]; other site 395492003738 catalytic residue [active] 395492003739 LysE type translocator; Region: LysE; cl00565 395492003740 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 395492003741 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 395492003742 inhibitor site; inhibition site 395492003743 active site 395492003744 dimer interface [polypeptide binding]; other site 395492003745 catalytic residue [active] 395492003746 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492003747 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 395492003748 Short-chain dehydrogenase involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]; Region: DltE; COG3967 395492003749 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492003750 NAD(P) binding site [chemical binding]; other site 395492003751 active site 395492003752 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492003753 NADH(P)-binding; Region: NAD_binding_10; pfam13460 395492003754 NAD(P) binding site [chemical binding]; other site 395492003755 active site 395492003756 Cupin domain; Region: Cupin_2; cl09118 395492003757 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395492003758 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395492003759 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395492003760 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 395492003761 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 395492003762 putative NAD(P) binding site [chemical binding]; other site 395492003763 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395492003764 Helix-turn-helix domains; Region: HTH; cl00088 395492003765 BON domain; Region: BON; cl02771 395492003766 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 395492003767 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 395492003768 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4782 395492003769 Alpha/beta hydrolase of unknown function (DUF900); Region: DUF900; pfam05990 395492003770 TolB amino-terminal domain; Region: TolB_N; cl00639 395492003771 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 395492003772 TPR motif; other site 395492003773 binding surface 395492003774 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 395492003775 TPR repeat; Region: TPR_11; pfam13414 395492003776 binding surface 395492003777 TPR motif; other site 395492003778 Protein of unknown function (DUF3604); Region: DUF3604; pfam12228 395492003779 PPIC-type PPIASE domain; Region: Rotamase; cl08278 395492003780 HupE / UreJ protein; Region: HupE_UreJ; cl01011 395492003781 HupE / UreJ protein; Region: HupE_UreJ; cl01011 395492003782 HupE / UreJ protein; Region: HupE_UreJ; cl01011 395492003783 Cysteine rich repeat; Region: Cys_rich_FGFR; pfam00839 395492003784 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 395492003785 ligand binding site [chemical binding]; other site 395492003786 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 395492003787 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 395492003788 Sulfatase; Region: Sulfatase; cl10460 395492003789 Sulfatase; Region: Sulfatase; cl10460 395492003790 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 395492003791 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 395492003792 Uncharacterized protein conserved in bacteria (DUF2191); Region: DUF2191; cl02270 395492003793 Transcriptional regulators [Transcription]; Region: GntR; COG1802 395492003794 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395492003795 DNA-binding site [nucleotide binding]; DNA binding site 395492003796 FCD domain; Region: FCD; cl11656 395492003797 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 395492003798 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 395492003799 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492003800 dimer interface [polypeptide binding]; other site 395492003801 conserved gate region; other site 395492003802 putative PBP binding loops; other site 395492003803 ABC-ATPase subunit interface; other site 395492003804 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 395492003805 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395492003806 substrate binding pocket [chemical binding]; other site 395492003807 membrane-bound complex binding site; other site 395492003808 hinge residues; other site 395492003809 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 395492003810 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492003811 Walker A/P-loop; other site 395492003812 ATP binding site [chemical binding]; other site 395492003813 Q-loop/lid; other site 395492003814 ABC transporter signature motif; other site 395492003815 Walker B; other site 395492003816 D-loop; other site 395492003817 H-loop/switch region; other site 395492003818 TOBE domain; Region: TOBE_2; cl01440 395492003819 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 395492003820 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492003821 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 395492003822 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 395492003823 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 395492003824 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492003825 dimer interface [polypeptide binding]; other site 395492003826 conserved gate region; other site 395492003827 putative PBP binding loops; other site 395492003828 ABC-ATPase subunit interface; other site 395492003829 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 395492003830 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 395492003831 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 395492003832 active site 395492003833 Flavin Reductases; Region: FlaRed; cl00801 395492003834 BON domain; Region: BON; cl02771 395492003835 CHASE4 domain; Region: CHASE4; cl01308 395492003836 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395492003837 metal binding site [ion binding]; metal-binding site 395492003838 active site 395492003839 I-site; other site 395492003840 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 395492003841 Ku-homolog [Replication, recombination, and repair]; Region: COG1273 395492003842 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 395492003843 putative DNA binding site [nucleotide binding]; other site 395492003844 putative homodimer interface [polypeptide binding]; other site 395492003845 Ku-homolog [Replication, recombination, and repair]; Region: COG1273 395492003846 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 395492003847 putative DNA binding site [nucleotide binding]; other site 395492003848 putative homodimer interface [polypeptide binding]; other site 395492003849 Protein of unknown function (DUF3606); Region: DUF3606; pfam12244 395492003850 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 395492003851 classical (c) SDRs; Region: SDR_c; cd05233 395492003852 NAD(P) binding site [chemical binding]; other site 395492003853 active site 395492003854 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 395492003855 classical (c) SDRs; Region: SDR_c; cd05233 395492003856 NAD(P) binding site [chemical binding]; other site 395492003857 active site 395492003858 Protein of unknown function (DUF3620); Region: DUF3620; cl02233 395492003859 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 395492003860 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395492003861 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395492003862 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395492003863 PAS domain; Region: PAS_9; pfam13426 395492003864 putative active site [active] 395492003865 heme pocket [chemical binding]; other site 395492003866 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395492003867 PAS fold; Region: PAS_3; pfam08447 395492003868 putative active site [active] 395492003869 heme pocket [chemical binding]; other site 395492003870 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395492003871 PAS domain; Region: PAS_9; pfam13426 395492003872 putative active site [active] 395492003873 heme pocket [chemical binding]; other site 395492003874 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 395492003875 dimer interface [polypeptide binding]; other site 395492003876 phosphorylation site [posttranslational modification] 395492003877 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 395492003878 ATP binding site [chemical binding]; other site 395492003879 Mg2+ binding site [ion binding]; other site 395492003880 G-X-G motif; other site 395492003881 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 395492003882 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492003883 active site 395492003884 phosphorylation site [posttranslational modification] 395492003885 intermolecular recognition site; other site 395492003886 dimerization interface [polypeptide binding]; other site 395492003887 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 395492003888 DNA binding residues [nucleotide binding] 395492003889 dimerization interface [polypeptide binding]; other site 395492003890 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 395492003891 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 395492003892 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 395492003893 active site 395492003894 DNA polymerase IV; Validated; Region: PRK02406 395492003895 DNA binding site [nucleotide binding] 395492003896 Cell division inhibitor SulA; Region: SulA; cl01880 395492003897 DNA Polymerase Y-family; Region: PolY_like; cd03468 395492003898 active site 395492003899 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 395492003900 DNA binding site [nucleotide binding] 395492003901 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 395492003902 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 395492003903 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 395492003904 generic binding surface I; other site 395492003905 generic binding surface II; other site 395492003906 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 395492003907 Helix-turn-helix domains; Region: HTH; cl00088 395492003908 WHG domain; Region: WHG; pfam13305 395492003909 Short-chain dehydrogenase involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]; Region: DltE; COG3967 395492003910 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492003911 NAD(P) binding site [chemical binding]; other site 395492003912 active site 395492003913 Helix-turn-helix domains; Region: HTH; cl00088 395492003914 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395492003915 Helix-turn-helix domains; Region: HTH; cl00088 395492003916 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395492003917 Helix-turn-helix domains; Region: HTH; cl00088 395492003918 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 395492003919 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492003920 NAD(P) binding site [chemical binding]; other site 395492003921 active site 395492003922 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395492003923 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492003924 NAD(P) binding site [chemical binding]; other site 395492003925 active site 395492003926 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 395492003927 Helix-turn-helix domains; Region: HTH; cl00088 395492003928 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 395492003929 GAF domain; Region: GAF_2; pfam13185 395492003930 GAF domain; Region: GAF; cl15785 395492003931 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 395492003932 dimer interface [polypeptide binding]; other site 395492003933 phosphorylation site [posttranslational modification] 395492003934 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 395492003935 ATP binding site [chemical binding]; other site 395492003936 Mg2+ binding site [ion binding]; other site 395492003937 G-X-G motif; other site 395492003938 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 395492003939 HicB family; Region: HicB; pfam05534 395492003940 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 395492003941 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395492003942 DNA-binding site [nucleotide binding]; DNA binding site 395492003943 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 395492003944 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492003945 homodimer interface [polypeptide binding]; other site 395492003946 catalytic residue [active] 395492003947 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 395492003948 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 395492003949 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395492003950 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_16; cd07263 395492003951 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 395492003952 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492003953 NAD(P) binding site [chemical binding]; other site 395492003954 active site 395492003955 Epoxide hydrolase N terminus; Region: EHN; pfam06441 395492003956 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395492003957 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 395492003958 DNA binding site [nucleotide binding] 395492003959 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492003960 Predicted ATPase [General function prediction only]; Region: COG3903 395492003961 TOMM system kinase/cyclase multidomain protein; Region: TOMM_kin_cyc; TIGR03903 395492003962 Helix-turn-helix domains; Region: HTH; cl00088 395492003963 Isochorismatase family; Region: Isochorismatase; pfam00857 395492003964 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 395492003965 catalytic triad [active] 395492003966 conserved cis-peptide bond; other site 395492003967 Epoxide hydrolase N terminus; Region: EHN; pfam06441 395492003968 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395492003969 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 395492003970 putative dimer interface [polypeptide binding]; other site 395492003971 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 395492003972 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 395492003973 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395492003974 putative ADP-binding pocket [chemical binding]; other site 395492003975 Protein of unknown function (DUF982); Region: DUF982; pfam06169 395492003976 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 395492003977 PAS domain S-box; Region: sensory_box; TIGR00229 395492003978 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395492003979 putative active site [active] 395492003980 heme pocket [chemical binding]; other site 395492003981 GAF domain; Region: GAF_2; pfam13185 395492003982 GAF domain; Region: GAF; cl15785 395492003983 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 395492003984 dimer interface [polypeptide binding]; other site 395492003985 phosphorylation site [posttranslational modification] 395492003986 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 395492003987 ATP binding site [chemical binding]; other site 395492003988 Mg2+ binding site [ion binding]; other site 395492003989 G-X-G motif; other site 395492003990 Response regulator receiver domain; Region: Response_reg; pfam00072 395492003991 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492003992 active site 395492003993 phosphorylation site [posttranslational modification] 395492003994 intermolecular recognition site; other site 395492003995 dimerization interface [polypeptide binding]; other site 395492003996 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 395492003997 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 395492003998 Ion channel; Region: Ion_trans_2; cl11596 395492003999 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 395492004000 ligand binding site [chemical binding]; other site 395492004001 flexible hinge region; other site 395492004002 ATP-dependent DNA ligase; Reviewed; Region: ligC; PRK08224 395492004003 Adenylation domain of Mycobacterium tuberculosis LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigC; cd07905 395492004004 active site 395492004005 DNA binding site [nucleotide binding] 395492004006 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigC is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigC; cd07970 395492004007 DNA binding site [nucleotide binding] 395492004008 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 395492004009 HSP70 interaction site [polypeptide binding]; other site 395492004010 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 395492004011 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492004012 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 395492004013 L-serine binding site [chemical binding]; other site 395492004014 ACT domain interface; other site 395492004015 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 395492004016 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 395492004017 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 395492004018 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 395492004019 metal binding site [ion binding]; metal-binding site 395492004020 putative dimer interface [polypeptide binding]; other site 395492004021 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 395492004022 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 395492004023 Walker A/P-loop; other site 395492004024 ATP binding site [chemical binding]; other site 395492004025 Q-loop/lid; other site 395492004026 ABC transporter signature motif; other site 395492004027 Walker B; other site 395492004028 D-loop; other site 395492004029 H-loop/switch region; other site 395492004030 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395492004031 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492004032 dimer interface [polypeptide binding]; other site 395492004033 conserved gate region; other site 395492004034 putative PBP binding loops; other site 395492004035 ABC-ATPase subunit interface; other site 395492004036 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395492004037 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 395492004038 substrate binding pocket [chemical binding]; other site 395492004039 membrane-bound complex binding site; other site 395492004040 hinge residues; other site 395492004041 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 395492004042 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 395492004043 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395492004044 DNA-binding site [nucleotide binding]; DNA binding site 395492004045 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 395492004046 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492004047 homodimer interface [polypeptide binding]; other site 395492004048 catalytic residue [active] 395492004049 Protein of unknown function (DUF982); Region: DUF982; pfam06169 395492004050 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 395492004051 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 395492004052 putative dimer interface [polypeptide binding]; other site 395492004053 Response regulator receiver domain; Region: Response_reg; pfam00072 395492004054 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492004055 active site 395492004056 phosphorylation site [posttranslational modification] 395492004057 intermolecular recognition site; other site 395492004058 dimerization interface [polypeptide binding]; other site 395492004059 Domain of unknown function (DUF305); Region: DUF305; cl15795 395492004060 Cytochrome c; Region: Cytochrom_C; cl11414 395492004061 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492004062 Response regulator receiver domain; Region: Response_reg; pfam00072 395492004063 active site 395492004064 phosphorylation site [posttranslational modification] 395492004065 intermolecular recognition site; other site 395492004066 dimerization interface [polypeptide binding]; other site 395492004067 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 395492004068 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 395492004069 ligand binding site [chemical binding]; other site 395492004070 flexible hinge region; other site 395492004071 Helix-turn-helix domains; Region: HTH; cl00088 395492004072 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 395492004073 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 395492004074 CheB methylesterase; Region: CheB_methylest; pfam01339 395492004075 CheB methylesterase; Region: CheB_methylest; pfam01339 395492004076 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 395492004077 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 395492004078 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 395492004079 Protein of unknown function (DUF904); Region: DUF904; cl11531 395492004080 PAS domain; Region: PAS_10; pfam13596 395492004081 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 395492004082 PAS domain; Region: PAS_9; pfam13426 395492004083 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 395492004084 PAS domain; Region: PAS_9; pfam13426 395492004085 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 395492004086 Histidine kinase; Region: HisKA_2; cl06527 395492004087 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395492004088 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492004089 active site 395492004090 phosphorylation site [posttranslational modification] 395492004091 intermolecular recognition site; other site 395492004092 dimerization interface [polypeptide binding]; other site 395492004093 Cytochrome c; Region: Cytochrom_C; cl11414 395492004094 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; cl09173 395492004095 Heme-copper oxidase subunit III subfamily. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane; Region: Heme_Cu_Oxidase_III_2; cd02865 395492004096 Subunit I/III interface [polypeptide binding]; other site 395492004097 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 395492004098 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 395492004099 D-pathway; other site 395492004100 Putative ubiquinol binding site [chemical binding]; other site 395492004101 Low-spin heme (heme b) binding site [chemical binding]; other site 395492004102 Putative water exit pathway; other site 395492004103 Binuclear center (heme o3/CuB) [ion binding]; other site 395492004104 K-pathway; other site 395492004105 Putative proton exit pathway; other site 395492004106 Cytochrome c oxidase subunit IV; Region: Cyt_c_ox_IV; pfam12270 395492004107 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 395492004108 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 395492004109 Cytochrome c; Region: Cytochrom_C; cl11414 395492004110 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 395492004111 Cytochrome c; Region: Cytochrom_C; cl11414 395492004112 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 395492004113 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 395492004114 putative molybdopterin cofactor binding site [chemical binding]; other site 395492004115 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 395492004116 putative molybdopterin cofactor binding site; other site 395492004117 RNA polymerase sigma factor; Provisional; Region: PRK11924 395492004118 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395492004119 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 395492004120 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395492004121 short chain dehydrogenase; Provisional; Region: PRK06701 395492004122 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492004123 NAD(P) binding site [chemical binding]; other site 395492004124 active site 395492004125 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 395492004126 dinuclear metal binding motif [ion binding]; other site 395492004127 Predicted esterase [General function prediction only]; Region: COG0400 395492004128 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395492004129 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 395492004130 Protein of unknown function (DUF3606); Region: DUF3606; pfam12244 395492004131 Protein of unknown function (DUF3618); Region: DUF3618; pfam12277 395492004132 Protein of unknown function (DUF1469); Region: DUF1469; cl12095 395492004133 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395492004134 PAS domain; Region: PAS_9; pfam13426 395492004135 putative active site [active] 395492004136 heme pocket [chemical binding]; other site 395492004137 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 395492004138 Histidine kinase; Region: HisKA_2; cl06527 395492004139 hypothetical protein; Provisional; Region: PRK13559 395492004140 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395492004141 putative active site [active] 395492004142 heme pocket [chemical binding]; other site 395492004143 Histidine kinase; Region: HisKA_2; cl06527 395492004144 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 395492004145 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 395492004146 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 395492004147 active site 395492004148 Transcriptional regulators [Transcription]; Region: GntR; COG1802 395492004149 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395492004150 DNA-binding site [nucleotide binding]; DNA binding site 395492004151 FCD domain; Region: FCD; cl11656 395492004152 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 395492004153 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 395492004154 inhibitor site; inhibition site 395492004155 active site 395492004156 dimer interface [polypeptide binding]; other site 395492004157 catalytic residue [active] 395492004158 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395492004159 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 395492004160 NAD(P) binding site [chemical binding]; other site 395492004161 catalytic residues [active] 395492004162 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492004163 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 395492004164 NMT1-like family; Region: NMT1_2; cl15260 395492004165 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 395492004166 This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these...; Region: ABC_Pro_Gly_Bertaine; cd03294 395492004167 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 395492004168 Walker A/P-loop; other site 395492004169 ATP binding site [chemical binding]; other site 395492004170 Q-loop/lid; other site 395492004171 ABC transporter signature motif; other site 395492004172 Walker B; other site 395492004173 D-loop; other site 395492004174 H-loop/switch region; other site 395492004175 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492004176 dimer interface [polypeptide binding]; other site 395492004177 conserved gate region; other site 395492004178 putative PBP binding loops; other site 395492004179 ABC-ATPase subunit interface; other site 395492004180 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492004181 dimer interface [polypeptide binding]; other site 395492004182 conserved gate region; other site 395492004183 ABC-ATPase subunit interface; other site 395492004184 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 395492004185 Proline racemase; Region: Pro_racemase; pfam05544 395492004186 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 395492004187 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 395492004188 conserved cys residue [active] 395492004189 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395492004190 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 395492004191 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 395492004192 active site 395492004193 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 395492004194 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 395492004195 FAD binding pocket [chemical binding]; other site 395492004196 FAD binding motif [chemical binding]; other site 395492004197 phosphate binding motif [ion binding]; other site 395492004198 beta-alpha-beta structure motif; other site 395492004199 NAD binding pocket [chemical binding]; other site 395492004200 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 395492004201 catalytic loop [active] 395492004202 iron binding site [ion binding]; other site 395492004203 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 395492004204 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 395492004205 [2Fe-2S] cluster binding site [ion binding]; other site 395492004206 C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_GbcA-like; cd08884 395492004207 putative alpha subunit interface [polypeptide binding]; other site 395492004208 putative active site [active] 395492004209 putative substrate binding site [chemical binding]; other site 395492004210 Fe binding site [ion binding]; other site 395492004211 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 395492004212 Helix-turn-helix domains; Region: HTH; cl00088 395492004213 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492004214 dimerization interface [polypeptide binding]; other site 395492004215 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 395492004216 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 395492004217 trimer interface [polypeptide binding]; other site 395492004218 active site 395492004219 substrate binding site [chemical binding]; other site 395492004220 CoA binding site [chemical binding]; other site 395492004221 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 395492004222 Helix-turn-helix domains; Region: HTH; cl00088 395492004223 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 395492004224 Proline dehydrogenase; Region: Pro_dh; cl03282 395492004225 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 395492004226 Glutamate binding site [chemical binding]; other site 395492004227 NAD binding site [chemical binding]; other site 395492004228 catalytic residues [active] 395492004229 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 395492004230 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 395492004231 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 395492004232 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395492004233 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395492004234 dimer interface [polypeptide binding]; other site 395492004235 putative CheW interface [polypeptide binding]; other site 395492004236 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 395492004237 FAD dependent oxidoreductase; Region: DAO; pfam01266 395492004238 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 395492004239 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 395492004240 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395492004241 NAD binding site [chemical binding]; other site 395492004242 catalytic residues [active] 395492004243 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 395492004244 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492004245 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 395492004246 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395492004247 Walker A/P-loop; other site 395492004248 ATP binding site [chemical binding]; other site 395492004249 Q-loop/lid; other site 395492004250 ABC transporter signature motif; other site 395492004251 Walker B; other site 395492004252 D-loop; other site 395492004253 H-loop/switch region; other site 395492004254 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395492004255 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395492004256 Walker A/P-loop; other site 395492004257 ATP binding site [chemical binding]; other site 395492004258 Q-loop/lid; other site 395492004259 ABC transporter signature motif; other site 395492004260 Walker B; other site 395492004261 D-loop; other site 395492004262 H-loop/switch region; other site 395492004263 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395492004264 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 395492004265 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 395492004266 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 395492004267 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492004268 dimer interface [polypeptide binding]; other site 395492004269 conserved gate region; other site 395492004270 putative PBP binding loops; other site 395492004271 ABC-ATPase subunit interface; other site 395492004272 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 395492004273 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 395492004274 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 395492004275 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 395492004276 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 395492004277 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 395492004278 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492004279 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 395492004280 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395492004281 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395492004282 DNA binding site [nucleotide binding] 395492004283 domain linker motif; other site 395492004284 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 395492004285 putative dimerization interface [polypeptide binding]; other site 395492004286 putative ligand binding site [chemical binding]; other site 395492004287 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 395492004288 intersubunit interface [polypeptide binding]; other site 395492004289 active site 395492004290 Zn2+ binding site [ion binding]; other site 395492004291 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 395492004292 tartrate dehydrogenase; Provisional; Region: PRK08194 395492004293 Helix-turn-helix domains; Region: HTH; cl00088 395492004294 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395492004295 Helix-turn-helix domains; Region: HTH; cl00088 395492004296 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492004297 dimerization interface [polypeptide binding]; other site 395492004298 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 395492004299 HPP family; Region: HPP; pfam04982 395492004300 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the HPP motif domain. These proteins are integral membrane proteins with four transmembrane spanning helices. The function of these proteins is...; Region: CBS_pair_HPP_assoc; cd04600 395492004301 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 395492004302 FAD binding domain; Region: FAD_binding_4; pfam01565 395492004303 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 395492004304 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 395492004305 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 395492004306 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 395492004307 Uncharacterized protein conserved in bacteria (DUF2264); Region: DUF2264; cl01752 395492004308 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395492004309 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492004310 Protein of unknown function, DUF624; Region: DUF624; cl02369 395492004311 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395492004312 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395492004313 Walker A/P-loop; other site 395492004314 ATP binding site [chemical binding]; other site 395492004315 Q-loop/lid; other site 395492004316 ABC transporter signature motif; other site 395492004317 Walker B; other site 395492004318 D-loop; other site 395492004319 H-loop/switch region; other site 395492004320 TOBE domain; Region: TOBE_2; cl01440 395492004321 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 395492004322 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 395492004323 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395492004324 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492004325 dimer interface [polypeptide binding]; other site 395492004326 conserved gate region; other site 395492004327 putative PBP binding loops; other site 395492004328 ABC-ATPase subunit interface; other site 395492004329 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492004330 dimer interface [polypeptide binding]; other site 395492004331 conserved gate region; other site 395492004332 putative PBP binding loops; other site 395492004333 ABC-ATPase subunit interface; other site 395492004334 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 395492004335 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 395492004336 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 395492004337 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492004338 active site 395492004339 phosphorylation site [posttranslational modification] 395492004340 intermolecular recognition site; other site 395492004341 dimerization interface [polypeptide binding]; other site 395492004342 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 395492004343 DNA binding site [nucleotide binding] 395492004344 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 395492004345 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 395492004346 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 395492004347 dimer interface [polypeptide binding]; other site 395492004348 phosphorylation site [posttranslational modification] 395492004349 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 395492004350 ATP binding site [chemical binding]; other site 395492004351 Mg2+ binding site [ion binding]; other site 395492004352 G-X-G motif; other site 395492004353 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 395492004354 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492004355 dimer interface [polypeptide binding]; other site 395492004356 conserved gate region; other site 395492004357 putative PBP binding loops; other site 395492004358 ABC-ATPase subunit interface; other site 395492004359 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 395492004360 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 395492004361 Walker A/P-loop; other site 395492004362 ATP binding site [chemical binding]; other site 395492004363 Q-loop/lid; other site 395492004364 ABC transporter signature motif; other site 395492004365 Walker B; other site 395492004366 D-loop; other site 395492004367 H-loop/switch region; other site 395492004368 NMT1-like family; Region: NMT1_2; cl15260 395492004369 Transcriptional regulators [Transcription]; Region: FadR; COG2186 395492004370 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395492004371 DNA-binding site [nucleotide binding]; DNA binding site 395492004372 FCD domain; Region: FCD; cl11656 395492004373 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 395492004374 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 395492004375 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395492004376 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395492004377 DNA binding site [nucleotide binding] 395492004378 domain linker motif; other site 395492004379 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 395492004380 dimerization interface [polypeptide binding]; other site 395492004381 ligand binding site [chemical binding]; other site 395492004382 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 395492004383 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395492004384 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492004385 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 395492004386 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492004387 dimer interface [polypeptide binding]; other site 395492004388 conserved gate region; other site 395492004389 putative PBP binding loops; other site 395492004390 ABC-ATPase subunit interface; other site 395492004391 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395492004392 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492004393 dimer interface [polypeptide binding]; other site 395492004394 conserved gate region; other site 395492004395 putative PBP binding loops; other site 395492004396 ABC-ATPase subunit interface; other site 395492004397 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 395492004398 putative ligand binding site [chemical binding]; other site 395492004399 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395492004400 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395492004401 dimer interface [polypeptide binding]; other site 395492004402 putative CheW interface [polypeptide binding]; other site 395492004403 Protein of unknown function (DUF3422); Region: DUF3422; cl02073 395492004404 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395492004405 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492004406 Predicted unsaturated glucuronyl hydrolase involved in regulation of bacterial surface properties, and related proteins [General function prediction only]; Region: COG4225 395492004407 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 395492004408 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 395492004409 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395492004410 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395492004411 Walker A/P-loop; other site 395492004412 ATP binding site [chemical binding]; other site 395492004413 Q-loop/lid; other site 395492004414 ABC transporter signature motif; other site 395492004415 Walker B; other site 395492004416 D-loop; other site 395492004417 H-loop/switch region; other site 395492004418 TOBE domain; Region: TOBE_2; cl01440 395492004419 TOBE domain; Region: TOBE_2; cl01440 395492004420 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 395492004421 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492004422 ABC-ATPase subunit interface; other site 395492004423 putative PBP binding loops; other site 395492004424 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395492004425 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492004426 dimer interface [polypeptide binding]; other site 395492004427 conserved gate region; other site 395492004428 putative PBP binding loops; other site 395492004429 ABC-ATPase subunit interface; other site 395492004430 Helix-turn-helix domains; Region: HTH; cl00088 395492004431 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 395492004432 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 395492004433 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395492004434 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395492004435 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395492004436 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395492004437 DNA binding site [nucleotide binding] 395492004438 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 395492004439 ligand binding site [chemical binding]; other site 395492004440 dimerization interface [polypeptide binding]; other site 395492004441 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395492004442 Helix-turn-helix domains; Region: HTH; cl00088 395492004443 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395492004444 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395492004445 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395492004446 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395492004447 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395492004448 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 395492004449 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4782 395492004450 Sodium:solute symporter family; Region: SSF; cl00456 395492004451 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 395492004452 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 395492004453 dimerization interface [polypeptide binding]; other site 395492004454 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395492004455 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395492004456 dimer interface [polypeptide binding]; other site 395492004457 putative CheW interface [polypeptide binding]; other site 395492004458 Domain of unknown function (DUF4272); Region: DUF4272; pfam14094 395492004459 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 395492004460 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395492004461 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 395492004462 Coenzyme A binding pocket [chemical binding]; other site 395492004463 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 395492004464 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 395492004465 Phosphotransferase enzyme family; Region: APH; pfam01636 395492004466 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cd05120 395492004467 active site 395492004468 substrate binding site [chemical binding]; other site 395492004469 ATP binding site [chemical binding]; other site 395492004470 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 395492004471 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 395492004472 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 395492004473 active site 395492004474 homodimer interface [polypeptide binding]; other site 395492004475 catalytic site [active] 395492004476 acceptor binding site [chemical binding]; other site 395492004477 trehalose synthase; Region: treS_nterm; TIGR02456 395492004478 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 395492004479 active site 395492004480 catalytic site [active] 395492004481 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; cl01286 395492004482 glycogen branching enzyme; Provisional; Region: PRK05402 395492004483 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 395492004484 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 395492004485 active site 395492004486 catalytic site [active] 395492004487 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 395492004488 hypothetical protein; Provisional; Region: PRK08266 395492004489 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 395492004490 PYR/PP interface [polypeptide binding]; other site 395492004491 dimer interface [polypeptide binding]; other site 395492004492 TPP binding site [chemical binding]; other site 395492004493 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 395492004494 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 395492004495 TPP-binding site [chemical binding]; other site 395492004496 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 395492004497 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 395492004498 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492004499 homodimer interface [polypeptide binding]; other site 395492004500 catalytic residue [active] 395492004501 Helix-turn-helix domains; Region: HTH; cl00088 395492004502 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 395492004503 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 395492004504 Walker A/P-loop; other site 395492004505 ATP binding site [chemical binding]; other site 395492004506 Q-loop/lid; other site 395492004507 ABC transporter signature motif; other site 395492004508 Walker B; other site 395492004509 D-loop; other site 395492004510 H-loop/switch region; other site 395492004511 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 395492004512 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 395492004513 ABC-ATPase subunit interface; other site 395492004514 dimer interface [polypeptide binding]; other site 395492004515 putative PBP binding regions; other site 395492004516 Metal binding protein TroA_a. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and...; Region: TroA_a; cd01148 395492004517 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 395492004518 putative ligand binding residues [chemical binding]; other site 395492004519 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 395492004520 dimerization interface [polypeptide binding]; other site 395492004521 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 395492004522 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 395492004523 dimerization interface [polypeptide binding]; other site 395492004524 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 395492004525 dimerization interface [polypeptide binding]; other site 395492004526 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 395492004527 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 395492004528 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 395492004529 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 395492004530 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 395492004531 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 395492004532 dimerization interface [polypeptide binding]; other site 395492004533 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 395492004534 dimerization interface [polypeptide binding]; other site 395492004535 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 395492004536 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 395492004537 dimerization interface [polypeptide binding]; other site 395492004538 GAF domain; Region: GAF_2; pfam13185 395492004539 GAF domain; Region: GAF; cl15785 395492004540 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 395492004541 dimer interface [polypeptide binding]; other site 395492004542 phosphorylation site [posttranslational modification] 395492004543 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 395492004544 ATP binding site [chemical binding]; other site 395492004545 Mg2+ binding site [ion binding]; other site 395492004546 G-X-G motif; other site 395492004547 Response regulator receiver domain; Region: Response_reg; pfam00072 395492004548 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492004549 active site 395492004550 phosphorylation site [posttranslational modification] 395492004551 intermolecular recognition site; other site 395492004552 dimerization interface [polypeptide binding]; other site 395492004553 Response regulator receiver domain; Region: Response_reg; pfam00072 395492004554 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492004555 active site 395492004556 phosphorylation site [posttranslational modification] 395492004557 intermolecular recognition site; other site 395492004558 dimerization interface [polypeptide binding]; other site 395492004559 Response regulator receiver domain; Region: Response_reg; pfam00072 395492004560 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492004561 active site 395492004562 phosphorylation site [posttranslational modification] 395492004563 intermolecular recognition site; other site 395492004564 dimerization interface [polypeptide binding]; other site 395492004565 Response regulator receiver domain; Region: Response_reg; pfam00072 395492004566 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492004567 active site 395492004568 phosphorylation site [posttranslational modification] 395492004569 intermolecular recognition site; other site 395492004570 dimerization interface [polypeptide binding]; other site 395492004571 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 395492004572 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 395492004573 dimer interface [polypeptide binding]; other site 395492004574 phosphorylation site [posttranslational modification] 395492004575 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 395492004576 ATP binding site [chemical binding]; other site 395492004577 Mg2+ binding site [ion binding]; other site 395492004578 G-X-G motif; other site 395492004579 Response regulator receiver domain; Region: Response_reg; pfam00072 395492004580 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492004581 active site 395492004582 phosphorylation site [posttranslational modification] 395492004583 intermolecular recognition site; other site 395492004584 dimerization interface [polypeptide binding]; other site 395492004585 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 395492004586 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 395492004587 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 395492004588 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 395492004589 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 395492004590 catalytic site [active] 395492004591 active site 395492004592 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 395492004593 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 395492004594 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 395492004595 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492004596 dimer interface [polypeptide binding]; other site 395492004597 conserved gate region; other site 395492004598 putative PBP binding loops; other site 395492004599 ABC-ATPase subunit interface; other site 395492004600 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapC; COG4171 395492004601 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492004602 dimer interface [polypeptide binding]; other site 395492004603 conserved gate region; other site 395492004604 putative PBP binding loops; other site 395492004605 ABC-ATPase subunit interface; other site 395492004606 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 395492004607 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395492004608 Walker A/P-loop; other site 395492004609 ATP binding site [chemical binding]; other site 395492004610 Q-loop/lid; other site 395492004611 ABC transporter signature motif; other site 395492004612 Walker B; other site 395492004613 D-loop; other site 395492004614 H-loop/switch region; other site 395492004615 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395492004616 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395492004617 Walker A/P-loop; other site 395492004618 ATP binding site [chemical binding]; other site 395492004619 Q-loop/lid; other site 395492004620 ABC transporter signature motif; other site 395492004621 Walker B; other site 395492004622 D-loop; other site 395492004623 H-loop/switch region; other site 395492004624 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395492004625 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 395492004626 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492004627 Transcriptional regulators [Transcription]; Region: GntR; COG1802 395492004628 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395492004629 DNA-binding site [nucleotide binding]; DNA binding site 395492004630 FCD domain; Region: FCD; cl11656 395492004631 Dehydratase family; Region: ILVD_EDD; cl00340 395492004632 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 395492004633 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 395492004634 active site pocket [active] 395492004635 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 395492004636 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395492004637 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 395492004638 dimer interface [polypeptide binding]; other site 395492004639 NADP binding site [chemical binding]; other site 395492004640 catalytic residues [active] 395492004641 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 395492004642 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_12; cd08491 395492004643 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 395492004644 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395492004645 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 395492004646 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 395492004647 dimerization interface [polypeptide binding]; other site 395492004648 ligand binding site [chemical binding]; other site 395492004649 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395492004650 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 395492004651 substrate binding pocket [chemical binding]; other site 395492004652 membrane-bound complex binding site; other site 395492004653 hinge residues; other site 395492004654 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 395492004655 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492004656 dimer interface [polypeptide binding]; other site 395492004657 conserved gate region; other site 395492004658 putative PBP binding loops; other site 395492004659 ABC-ATPase subunit interface; other site 395492004660 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 395492004661 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 395492004662 Walker A/P-loop; other site 395492004663 ATP binding site [chemical binding]; other site 395492004664 Q-loop/lid; other site 395492004665 ABC transporter signature motif; other site 395492004666 Walker B; other site 395492004667 D-loop; other site 395492004668 H-loop/switch region; other site 395492004669 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 395492004670 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 395492004671 putative catalytic site [active] 395492004672 putative metal binding site [ion binding]; other site 395492004673 putative phosphate binding site [ion binding]; other site 395492004674 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 395492004675 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 395492004676 putative active site [active] 395492004677 catalytic site [active] 395492004678 Catalytic domain, repeat 2, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_2; cd09143 395492004679 putative active site [active] 395492004680 catalytic site [active] 395492004681 Protein of unknown function (DUF763); Region: DUF763; cl00620 395492004682 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 395492004683 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 395492004684 EamA-like transporter family; Region: EamA; cl01037 395492004685 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 395492004686 Flagellin N-methylase; Region: FliB; cl00497 395492004687 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; cl16920 395492004688 Protein of unknown function (DUF982); Region: DUF982; pfam06169 395492004689 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 395492004690 DNA-binding site [nucleotide binding]; DNA binding site 395492004691 RNA-binding motif; other site 395492004692 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 395492004693 S-adenosylmethionine binding site [chemical binding]; other site 395492004694 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492004695 TOMM system kinase/cyclase multidomain protein; Region: TOMM_kin_cyc; TIGR03903 395492004696 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 395492004697 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 395492004698 DNA binding residues [nucleotide binding] 395492004699 dimerization interface [polypeptide binding]; other site 395492004700 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395492004701 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395492004702 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395492004703 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 395492004704 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395492004705 Walker A/P-loop; other site 395492004706 ATP binding site [chemical binding]; other site 395492004707 Q-loop/lid; other site 395492004708 ABC transporter signature motif; other site 395492004709 Walker B; other site 395492004710 D-loop; other site 395492004711 H-loop/switch region; other site 395492004712 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 395492004713 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395492004714 Walker A/P-loop; other site 395492004715 ATP binding site [chemical binding]; other site 395492004716 Q-loop/lid; other site 395492004717 ABC transporter signature motif; other site 395492004718 Walker B; other site 395492004719 D-loop; other site 395492004720 H-loop/switch region; other site 395492004721 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395492004722 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 395492004723 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492004724 dimer interface [polypeptide binding]; other site 395492004725 conserved gate region; other site 395492004726 putative PBP binding loops; other site 395492004727 ABC-ATPase subunit interface; other site 395492004728 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 395492004729 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492004730 dimer interface [polypeptide binding]; other site 395492004731 conserved gate region; other site 395492004732 putative PBP binding loops; other site 395492004733 ABC-ATPase subunit interface; other site 395492004734 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 395492004735 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 395492004736 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 395492004737 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 395492004738 inhibitor site; inhibition site 395492004739 active site 395492004740 dimer interface [polypeptide binding]; other site 395492004741 catalytic residue [active] 395492004742 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 395492004743 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 395492004744 extended (e) SDRs; Region: SDR_e; cd08946 395492004745 NAD(P) binding site [chemical binding]; other site 395492004746 active site 395492004747 substrate binding site [chemical binding]; other site 395492004748 Transcriptional regulators [Transcription]; Region: FadR; COG2186 395492004749 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395492004750 DNA-binding site [nucleotide binding]; DNA binding site 395492004751 FCD domain; Region: FCD; cl11656 395492004752 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_4; cd08500 395492004753 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 395492004754 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 395492004755 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492004756 dimer interface [polypeptide binding]; other site 395492004757 conserved gate region; other site 395492004758 putative PBP binding loops; other site 395492004759 ABC-ATPase subunit interface; other site 395492004760 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492004761 dimer interface [polypeptide binding]; other site 395492004762 conserved gate region; other site 395492004763 putative PBP binding loops; other site 395492004764 ABC-ATPase subunit interface; other site 395492004765 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 395492004766 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395492004767 Walker A/P-loop; other site 395492004768 ATP binding site [chemical binding]; other site 395492004769 Q-loop/lid; other site 395492004770 ABC transporter signature motif; other site 395492004771 Walker B; other site 395492004772 D-loop; other site 395492004773 H-loop/switch region; other site 395492004774 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395492004775 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395492004776 Walker A/P-loop; other site 395492004777 ATP binding site [chemical binding]; other site 395492004778 Q-loop/lid; other site 395492004779 ABC transporter signature motif; other site 395492004780 Walker B; other site 395492004781 D-loop; other site 395492004782 H-loop/switch region; other site 395492004783 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395492004784 galactonate dehydratase; Provisional; Region: PRK14017 395492004785 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 395492004786 active site pocket [active] 395492004787 galactonate dehydratase; Provisional; Region: PRK14017 395492004788 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 395492004789 active site pocket [active] 395492004790 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 395492004791 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 395492004792 putative FMN binding site [chemical binding]; other site 395492004793 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 395492004794 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492004795 active site 395492004796 phosphorylation site [posttranslational modification] 395492004797 intermolecular recognition site; other site 395492004798 dimerization interface [polypeptide binding]; other site 395492004799 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 395492004800 DNA binding residues [nucleotide binding] 395492004801 dimerization interface [polypeptide binding]; other site 395492004802 Response regulator receiver domain; Region: Response_reg; pfam00072 395492004803 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492004804 active site 395492004805 phosphorylation site [posttranslational modification] 395492004806 intermolecular recognition site; other site 395492004807 dimerization interface [polypeptide binding]; other site 395492004808 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 395492004809 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492004810 active site 395492004811 phosphorylation site [posttranslational modification] 395492004812 intermolecular recognition site; other site 395492004813 dimerization interface [polypeptide binding]; other site 395492004814 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 395492004815 DNA binding residues [nucleotide binding] 395492004816 dimerization interface [polypeptide binding]; other site 395492004817 Predicted integral membrane sensor domain [Signal transduction mechanisms]; Region: COG3447 395492004818 MASE1; Region: MASE1; pfam05231 395492004819 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395492004820 PAS fold; Region: PAS_3; pfam08447 395492004821 putative active site [active] 395492004822 heme pocket [chemical binding]; other site 395492004823 PAS fold; Region: PAS; pfam00989 395492004824 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395492004825 putative active site [active] 395492004826 heme pocket [chemical binding]; other site 395492004827 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395492004828 PAS fold; Region: PAS_3; pfam08447 395492004829 putative active site [active] 395492004830 heme pocket [chemical binding]; other site 395492004831 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395492004832 PAS domain; Region: PAS_9; pfam13426 395492004833 putative active site [active] 395492004834 heme pocket [chemical binding]; other site 395492004835 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395492004836 PAS fold; Region: PAS_3; pfam08447 395492004837 putative active site [active] 395492004838 heme pocket [chemical binding]; other site 395492004839 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 395492004840 dimer interface [polypeptide binding]; other site 395492004841 phosphorylation site [posttranslational modification] 395492004842 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 395492004843 ATP binding site [chemical binding]; other site 395492004844 Mg2+ binding site [ion binding]; other site 395492004845 G-X-G motif; other site 395492004846 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492004847 NADH(P)-binding; Region: NAD_binding_10; pfam13460 395492004848 NAD(P) binding site [chemical binding]; other site 395492004849 active site 395492004850 Protein of unknown function DUF72; Region: DUF72; cl00777 395492004851 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 395492004852 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 395492004853 P-loop; other site 395492004854 Magnesium ion binding site [ion binding]; other site 395492004855 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 395492004856 Magnesium ion binding site [ion binding]; other site 395492004857 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 395492004858 ParB-like nuclease domain; Region: ParBc; cl02129 395492004859 replication initiation protein RepC; Provisional; Region: PRK13824 395492004860 Helix-turn-helix domains; Region: HTH; cl00088 395492004861 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 395492004862 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 395492004863 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 395492004864 inhibitor site; inhibition site 395492004865 active site 395492004866 dimer interface [polypeptide binding]; other site 395492004867 catalytic residue [active] 395492004868 Transcriptional regulators [Transcription]; Region: GntR; COG1802 395492004869 Helix-turn-helix domains; Region: HTH; cl00088 395492004870 DNA-binding site [nucleotide binding]; DNA binding site 395492004871 FCD domain; Region: FCD; cl11656 395492004872 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395492004873 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492004874 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492004875 dimer interface [polypeptide binding]; other site 395492004876 conserved gate region; other site 395492004877 putative PBP binding loops; other site 395492004878 ABC-ATPase subunit interface; other site 395492004879 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395492004880 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492004881 putative PBP binding loops; other site 395492004882 ABC-ATPase subunit interface; other site 395492004883 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 395492004884 Ribokinase-like subgroup B. Found in bacteria and plants, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_B; cd01945 395492004885 substrate binding site [chemical binding]; other site 395492004886 ATP binding site [chemical binding]; other site 395492004887 Phosphate transporter family; Region: PHO4; cl00396 395492004888 Protein of unknown function DUF47; Region: PhoU_div; pfam01865 395492004889 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395492004890 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492004891 dimer interface [polypeptide binding]; other site 395492004892 conserved gate region; other site 395492004893 putative PBP binding loops; other site 395492004894 ABC-ATPase subunit interface; other site 395492004895 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492004896 dimer interface [polypeptide binding]; other site 395492004897 conserved gate region; other site 395492004898 putative PBP binding loops; other site 395492004899 ABC-ATPase subunit interface; other site 395492004900 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395492004901 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492004902 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395492004903 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395492004904 DNA binding site [nucleotide binding] 395492004905 domain linker motif; other site 395492004906 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 395492004907 dimerization interface [polypeptide binding]; other site 395492004908 ligand binding site [chemical binding]; other site 395492004909 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395492004910 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 395492004911 substrate binding pocket [chemical binding]; other site 395492004912 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395492004913 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492004914 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 395492004915 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 395492004916 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 395492004917 Helix-turn-helix domains; Region: HTH; cl00088 395492004918 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 395492004919 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 395492004920 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 395492004921 putative active site; other site 395492004922 catalytic residue [active] 395492004923 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 395492004924 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 395492004925 substrate binding site [chemical binding]; other site 395492004926 ATP binding site [chemical binding]; other site 395492004927 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395492004928 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395492004929 Walker A/P-loop; other site 395492004930 ATP binding site [chemical binding]; other site 395492004931 Q-loop/lid; other site 395492004932 ABC transporter signature motif; other site 395492004933 Walker B; other site 395492004934 D-loop; other site 395492004935 H-loop/switch region; other site 395492004936 TOBE domain; Region: TOBE_2; cl01440 395492004937 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395492004938 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492004939 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 395492004940 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395492004941 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395492004942 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 395492004943 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 395492004944 substrate binding site [chemical binding]; other site 395492004945 hexamer interface [polypeptide binding]; other site 395492004946 metal binding site [ion binding]; metal-binding site 395492004947 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 395492004948 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 395492004949 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395492004950 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395492004951 DNA binding site [nucleotide binding] 395492004952 domain linker motif; other site 395492004953 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 395492004954 ligand binding site [chemical binding]; other site 395492004955 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 395492004956 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492004957 dimer interface [polypeptide binding]; other site 395492004958 conserved gate region; other site 395492004959 putative PBP binding loops; other site 395492004960 ABC-ATPase subunit interface; other site 395492004961 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395492004962 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492004963 dimer interface [polypeptide binding]; other site 395492004964 conserved gate region; other site 395492004965 putative PBP binding loops; other site 395492004966 ABC-ATPase subunit interface; other site 395492004967 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395492004968 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395492004969 Walker A/P-loop; other site 395492004970 ATP binding site [chemical binding]; other site 395492004971 Q-loop/lid; other site 395492004972 ABC transporter signature motif; other site 395492004973 Walker B; other site 395492004974 D-loop; other site 395492004975 H-loop/switch region; other site 395492004976 TOBE domain; Region: TOBE_2; cl01440 395492004977 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 395492004978 conserved cys residue [active] 395492004979 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395492004980 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492004981 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 395492004982 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 395492004983 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR9; cd08274 395492004984 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 395492004985 putative NAD(P) binding site [chemical binding]; other site 395492004986 hypothetical protein; Provisional; Region: PRK07482 395492004987 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 395492004988 inhibitor-cofactor binding pocket; inhibition site 395492004989 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492004990 catalytic residue [active] 395492004991 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395492004992 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 395492004993 tetramerization interface [polypeptide binding]; other site 395492004994 NAD(P) binding site [chemical binding]; other site 395492004995 catalytic residues [active] 395492004996 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 395492004997 Helix-turn-helix domains; Region: HTH; cl00088 395492004998 Amino acid synthesis; Region: AA_synth; pfam06684 395492004999 GAF domain; Region: GAF_2; pfam13185 395492005000 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 395492005001 Helix-turn-helix domains; Region: HTH; cl00088 395492005002 Flavin Reductases; Region: FlaRed; cl00801 395492005003 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 395492005004 nudix motif; other site 395492005005 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395492005006 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 395492005007 NAD(P) binding site [chemical binding]; other site 395492005008 catalytic residues [active] 395492005009 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 395492005010 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 395492005011 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 395492005012 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395492005013 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 395492005014 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395492005015 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 395492005016 substrate binding pocket [chemical binding]; other site 395492005017 membrane-bound complex binding site; other site 395492005018 hinge residues; other site 395492005019 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492005020 dimer interface [polypeptide binding]; other site 395492005021 conserved gate region; other site 395492005022 putative PBP binding loops; other site 395492005023 ABC-ATPase subunit interface; other site 395492005024 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 395492005025 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 395492005026 Walker A/P-loop; other site 395492005027 ATP binding site [chemical binding]; other site 395492005028 Q-loop/lid; other site 395492005029 ABC transporter signature motif; other site 395492005030 Walker B; other site 395492005031 D-loop; other site 395492005032 H-loop/switch region; other site 395492005033 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 395492005034 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 395492005035 putative DNA binding site [nucleotide binding]; other site 395492005036 putative Zn2+ binding site [ion binding]; other site 395492005037 Helix-turn-helix domains; Region: HTH; cl00088 395492005038 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 395492005039 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395492005040 DNA-binding site [nucleotide binding]; DNA binding site 395492005041 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 395492005042 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492005043 homodimer interface [polypeptide binding]; other site 395492005044 catalytic residue [active] 395492005045 ectoine/hydroxyectoine ABC transporter, ATP-binding protein; Region: ectoine_ehuA; TIGR03005 395492005046 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 395492005047 Walker A/P-loop; other site 395492005048 ATP binding site [chemical binding]; other site 395492005049 Q-loop/lid; other site 395492005050 ABC transporter signature motif; other site 395492005051 Walker B; other site 395492005052 D-loop; other site 395492005053 H-loop/switch region; other site 395492005054 ectoine/hydroxyectoine ABC transporter solute-binding protein; Region: ectoine_ehuB; TIGR02995 395492005055 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 395492005056 substrate binding pocket [chemical binding]; other site 395492005057 membrane-bound complex binding site; other site 395492005058 hinge residues; other site 395492005059 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 395492005060 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492005061 dimer interface [polypeptide binding]; other site 395492005062 conserved gate region; other site 395492005063 putative PBP binding loops; other site 395492005064 ABC-ATPase subunit interface; other site 395492005065 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492005066 dimer interface [polypeptide binding]; other site 395492005067 conserved gate region; other site 395492005068 putative PBP binding loops; other site 395492005069 ABC-ATPase subunit interface; other site 395492005070 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 395492005071 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 395492005072 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 395492005073 tetramer interface [polypeptide binding]; other site 395492005074 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492005075 catalytic residue [active] 395492005076 ectoine utilization protein EutC; Validated; Region: PRK08291 395492005077 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492005078 ectoine utilization protein EutD; Region: ectoine_eutD; TIGR02993 395492005079 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 395492005080 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 395492005081 active site 395492005082 ectoine utilization protein EutE; Region: ectoine_eutE; TIGR02994 395492005083 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 395492005084 putative active site [active] 395492005085 Zn binding site [ion binding]; other site 395492005086 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395492005087 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395492005088 dimer interface [polypeptide binding]; other site 395492005089 putative CheW interface [polypeptide binding]; other site 395492005090 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK06008 395492005091 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 395492005092 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 395492005093 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07521 395492005094 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 395492005095 Flagella basal body rod protein; Region: Flg_bb_rod; cl16924 395492005096 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 395492005097 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 395492005098 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 395492005099 Ca2+ binding site [ion binding]; other site 395492005100 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395492005101 Helix-turn-helix domains; Region: HTH; cl00088 395492005102 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 395492005103 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 395492005104 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 395492005105 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 395492005106 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 395492005107 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 395492005108 PAS domain; Region: PAS_9; pfam13426 395492005109 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395492005110 putative active site [active] 395492005111 heme pocket [chemical binding]; other site 395492005112 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395492005113 PAS domain; Region: PAS_9; pfam13426 395492005114 putative active site [active] 395492005115 heme pocket [chemical binding]; other site 395492005116 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395492005117 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395492005118 dimer interface [polypeptide binding]; other site 395492005119 putative CheW interface [polypeptide binding]; other site 395492005120 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395492005121 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 395492005122 substrate binding pocket [chemical binding]; other site 395492005123 membrane-bound complex binding site; other site 395492005124 hinge residues; other site 395492005125 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492005126 dimer interface [polypeptide binding]; other site 395492005127 conserved gate region; other site 395492005128 putative PBP binding loops; other site 395492005129 ABC-ATPase subunit interface; other site 395492005130 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 395492005131 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492005132 dimer interface [polypeptide binding]; other site 395492005133 conserved gate region; other site 395492005134 putative PBP binding loops; other site 395492005135 ABC-ATPase subunit interface; other site 395492005136 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 395492005137 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492005138 Walker A/P-loop; other site 395492005139 ATP binding site [chemical binding]; other site 395492005140 Q-loop/lid; other site 395492005141 ABC transporter signature motif; other site 395492005142 Walker B; other site 395492005143 D-loop; other site 395492005144 H-loop/switch region; other site 395492005145 Transcriptional regulators [Transcription]; Region: GntR; COG1802 395492005146 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395492005147 DNA-binding site [nucleotide binding]; DNA binding site 395492005148 FCD domain; Region: FCD; cl11656 395492005149 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395492005150 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 395492005151 substrate binding pocket [chemical binding]; other site 395492005152 membrane-bound complex binding site; other site 395492005153 hinge residues; other site 395492005154 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 395492005155 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492005156 dimer interface [polypeptide binding]; other site 395492005157 conserved gate region; other site 395492005158 putative PBP binding loops; other site 395492005159 ABC-ATPase subunit interface; other site 395492005160 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 395492005161 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492005162 ABC-ATPase subunit interface; other site 395492005163 putative PBP binding loops; other site 395492005164 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 395492005165 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 395492005166 Walker A/P-loop; other site 395492005167 ATP binding site [chemical binding]; other site 395492005168 Q-loop/lid; other site 395492005169 ABC transporter signature motif; other site 395492005170 Walker B; other site 395492005171 D-loop; other site 395492005172 H-loop/switch region; other site 395492005173 PspA/IM30 family; Region: PspA_IM30; pfam04012 395492005174 Uncharacterized protein conserved in bacteria (DUF2170); Region: DUF2170; cl01551 395492005175 Ion channel; Region: Ion_trans_2; cl11596 395492005176 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492005177 Protein of unknown function (DUF2491); Region: DUF2491; pfam10679 395492005178 Predicted membrane protein [Function unknown]; Region: COG3766 395492005179 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 395492005180 Protein of unknown function (DUF1190); Region: DUF1190; cl10031 395492005181 Circularly permuted ATP-grasp type 2; Region: CP_ATPgrasp_2; cl00503 395492005182 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395492005183 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 395492005184 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 395492005185 DNA binding residues [nucleotide binding] 395492005186 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 395492005187 P-loop; other site 395492005188 Magnesium ion binding site [ion binding]; other site 395492005189 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 395492005190 Magnesium ion binding site [ion binding]; other site 395492005191 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 395492005192 ParB-like nuclease domain; Region: ParBc; cl02129 395492005193 replication initiation protein RepC; Provisional; Region: PRK13824 395492005194 Helix-turn-helix domains; Region: HTH; cl00088 395492005195 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 395492005196 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 395492005197 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 395492005198 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 395492005199 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 395492005200 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 395492005201 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 395492005202 active site 395492005203 non-prolyl cis peptide bond; other site 395492005204 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 395492005205 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 395492005206 metal binding site [ion binding]; metal-binding site 395492005207 putative dimer interface [polypeptide binding]; other site 395492005208 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395492005209 Coenzyme A binding pocket [chemical binding]; other site 395492005210 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492005211 dimer interface [polypeptide binding]; other site 395492005212 conserved gate region; other site 395492005213 putative PBP binding loops; other site 395492005214 ABC-ATPase subunit interface; other site 395492005215 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 395492005216 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 395492005217 Walker A/P-loop; other site 395492005218 ATP binding site [chemical binding]; other site 395492005219 Q-loop/lid; other site 395492005220 ABC transporter signature motif; other site 395492005221 Walker B; other site 395492005222 D-loop; other site 395492005223 H-loop/switch region; other site 395492005224 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395492005225 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 395492005226 substrate binding pocket [chemical binding]; other site 395492005227 membrane-bound complex binding site; other site 395492005228 hinge residues; other site 395492005229 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 395492005230 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395492005231 substrate binding pocket [chemical binding]; other site 395492005232 membrane-bound complex binding site; other site 395492005233 hinge residues; other site 395492005234 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 395492005235 putative FMN-dependent luciferase-like monooxygenase, KPN_01858 family; Region: LLM_KPN_01858; TIGR04027 395492005236 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 395492005237 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 395492005238 putative catalytic residue [active] 395492005239 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 395492005240 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395492005241 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 395492005242 putative active site pocket [active] 395492005243 dimerization interface [polypeptide binding]; other site 395492005244 putative catalytic residue [active] 395492005245 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492005246 dimer interface [polypeptide binding]; other site 395492005247 conserved gate region; other site 395492005248 putative PBP binding loops; other site 395492005249 ABC-ATPase subunit interface; other site 395492005250 taurine transporter ATP-binding subunit; Provisional; Region: tauB; PRK11248 395492005251 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 395492005252 Walker A/P-loop; other site 395492005253 ATP binding site [chemical binding]; other site 395492005254 Q-loop/lid; other site 395492005255 ABC transporter signature motif; other site 395492005256 Walker B; other site 395492005257 D-loop; other site 395492005258 H-loop/switch region; other site 395492005259 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 395492005260 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 395492005261 substrate binding pocket [chemical binding]; other site 395492005262 membrane-bound complex binding site; other site 395492005263 hinge residues; other site 395492005264 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 395492005265 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492005266 Transcriptional regulators [Transcription]; Region: FadR; COG2186 395492005267 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395492005268 DNA-binding site [nucleotide binding]; DNA binding site 395492005269 FCD domain; Region: FCD; cl11656 395492005270 LysE type translocator; Region: LysE; cl00565 395492005271 Cupin domain; Region: Cupin_2; cl09118 395492005272 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 395492005273 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395492005274 Amino acid synthesis; Region: AA_synth; pfam06684 395492005275 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395492005276 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation', the process of becoming...; Region: Lipase; cl14883 395492005277 nucleophilic elbow; other site 395492005278 catalytic triad; other site 395492005279 Flavin Reductases; Region: FlaRed; cl00801 395492005280 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 395492005281 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 395492005282 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 395492005283 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395492005284 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 395492005285 NAD(P) binding site [chemical binding]; other site 395492005286 catalytic residues [active] 395492005287 NIPSNAP; Region: NIPSNAP; pfam07978 395492005288 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 395492005289 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492005290 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 395492005291 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492005292 dimer interface [polypeptide binding]; other site 395492005293 conserved gate region; other site 395492005294 putative PBP binding loops; other site 395492005295 ABC-ATPase subunit interface; other site 395492005296 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 395492005297 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492005298 Walker A/P-loop; other site 395492005299 ATP binding site [chemical binding]; other site 395492005300 Q-loop/lid; other site 395492005301 ABC transporter signature motif; other site 395492005302 Walker B; other site 395492005303 D-loop; other site 395492005304 H-loop/switch region; other site 395492005305 TOBE domain; Region: TOBE_2; cl01440 395492005306 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395492005307 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 395492005308 tetramerization interface [polypeptide binding]; other site 395492005309 NAD(P) binding site [chemical binding]; other site 395492005310 catalytic residues [active] 395492005311 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 395492005312 NMT1-like family; Region: NMT1_2; cl15260 395492005313 oxidoreductase; Provisional; Region: PRK10015 395492005314 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492005315 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 395492005316 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 395492005317 extended (e) SDRs; Region: SDR_e; cd08946 395492005318 NAD(P) binding site [chemical binding]; other site 395492005319 active site 395492005320 substrate binding site [chemical binding]; other site 395492005321 Predicted kinase related to galactokinase and mevalonate kinase [General function prediction only]; Region: COG2605 395492005322 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 395492005323 active site 395492005324 Substrate binding site; other site 395492005325 Mg++ binding site; other site 395492005326 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 395492005327 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 395492005328 active site 395492005329 motif I; other site 395492005330 motif II; other site 395492005331 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492005332 active site 395492005333 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395492005334 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492005335 NAD(P) binding site [chemical binding]; other site 395492005336 active site 395492005337 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 395492005338 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 395492005339 Ligand binding site; other site 395492005340 Putative Catalytic site; other site 395492005341 DXD motif; other site 395492005342 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 395492005343 dimer interface [polypeptide binding]; other site 395492005344 active site 395492005345 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395492005346 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395492005347 Walker A/P-loop; other site 395492005348 ATP binding site [chemical binding]; other site 395492005349 Q-loop/lid; other site 395492005350 ABC transporter signature motif; other site 395492005351 Walker B; other site 395492005352 D-loop; other site 395492005353 H-loop/switch region; other site 395492005354 TOBE domain; Region: TOBE_2; cl01440 395492005355 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395492005356 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492005357 dimer interface [polypeptide binding]; other site 395492005358 conserved gate region; other site 395492005359 putative PBP binding loops; other site 395492005360 ABC-ATPase subunit interface; other site 395492005361 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492005362 dimer interface [polypeptide binding]; other site 395492005363 conserved gate region; other site 395492005364 putative PBP binding loops; other site 395492005365 ABC-ATPase subunit interface; other site 395492005366 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395492005367 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492005368 Alpha-L-rhamnosidase N-terminal domain; Region: Bac_rhamnosid_N; pfam08531 395492005369 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 395492005370 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395492005371 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395492005372 DNA binding site [nucleotide binding] 395492005373 domain linker motif; other site 395492005374 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 395492005375 dimerization interface [polypeptide binding]; other site 395492005376 ligand binding site [chemical binding]; other site 395492005377 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 395492005378 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 395492005379 Protein export membrane protein; Region: SecD_SecF; cl14618 395492005380 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395492005381 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395492005382 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 395492005383 DnaA N-terminal domain; Region: DnaA_N; pfam11638 395492005384 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 395492005385 Walker A motif; other site 395492005386 ATP binding site [chemical binding]; other site 395492005387 Walker B motif; other site 395492005388 arginine finger; other site 395492005389 C-terminal domain of bacterial DnaA proteins. The DNA-binding C-terminal domain of DnaA contains a helix-turn-helix motif that specifically interacts with the DnaA box, a 9-mer motif that occurs repetitively in the replication origin oriC. Multiple...; Region: Bac_DnaA_C; cd06571 395492005390 DnaA box-binding interface [nucleotide binding]; other site 395492005391 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 395492005392 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492005393 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 395492005394 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 395492005395 FeS/SAM binding site; other site 395492005396 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 395492005397 active site 395492005398 dimerization interface [polypeptide binding]; other site 395492005399 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_13; cd08354 395492005400 putative metal binding site [ion binding]; other site 395492005401 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395492005402 ribonuclease PH; Reviewed; Region: rph; PRK00173 395492005403 Ribonuclease PH; Region: RNase_PH_bact; cd11362 395492005404 hexamer interface [polypeptide binding]; other site 395492005405 active site 395492005406 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 395492005407 Helix-turn-helix domains; Region: HTH; cl00088 395492005408 DNA-binding site [nucleotide binding]; DNA binding site 395492005409 HrcA protein C terminal domain; Region: HrcA; pfam01628 395492005410 heat shock protein GrpE; Provisional; Region: PRK14141 395492005411 GrpE is the adenine nucleotide exchange factor of DnaK (Hsp70)-type ATPases. The GrpE dimer binds to the ATPase domain of Hsp70 catalyzing the dissociation of ADP, which enables rebinding of ATP, one step in the Hsp70 reaction cycle in protein folding; Region: GrpE; cd00446 395492005412 dimer interface [polypeptide binding]; other site 395492005413 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 395492005414 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 395492005415 active site 395492005416 tetramer interface [polypeptide binding]; other site 395492005417 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 395492005418 putative dimer interface [polypeptide binding]; other site 395492005419 Protein of unknown function (DUF1150); Region: DUF1150; cl11577 395492005420 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 395492005421 S-adenosylmethionine synthetase; Validated; Region: PRK05250 395492005422 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 395492005423 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 395492005424 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 395492005425 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 395492005426 non-specific DNA binding site [nucleotide binding]; other site 395492005427 salt bridge; other site 395492005428 sequence-specific DNA binding site [nucleotide binding]; other site 395492005429 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 395492005430 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 395492005431 putative active site [active] 395492005432 catalytic triad [active] 395492005433 putative dimer interface [polypeptide binding]; other site 395492005434 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 395492005435 Transporter associated domain; Region: CorC_HlyC; cl08393 395492005436 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 395492005437 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 395492005438 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492005439 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 395492005440 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 395492005441 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 395492005442 FeS/SAM binding site; other site 395492005443 TRAM domain; Region: TRAM; cl01282 395492005444 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 395492005445 putative acyl-acceptor binding pocket; other site 395492005446 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 395492005447 metal binding site 2 [ion binding]; metal-binding site 395492005448 putative DNA binding helix; other site 395492005449 metal binding site 1 [ion binding]; metal-binding site 395492005450 dimer interface [polypeptide binding]; other site 395492005451 structural Zn2+ binding site [ion binding]; other site 395492005452 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 395492005453 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395492005454 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 395492005455 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; cl07364 395492005456 NifU-like domain; Region: NifU; cl00484 395492005457 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 395492005458 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 395492005459 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 395492005460 active site 395492005461 HIGH motif; other site 395492005462 dimer interface [polypeptide binding]; other site 395492005463 KMSKS motif; other site 395492005464 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_16; cd07263 395492005465 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395492005466 Peptidase M15; Region: Peptidase_M15_3; cl01194 395492005467 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 395492005468 PII uridylyl-transferase; Provisional; Region: PRK05092 395492005469 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 395492005470 metal binding triad; other site 395492005471 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 395492005472 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 395492005473 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 395492005474 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 395492005475 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 395492005476 MutS domain I; Region: MutS_I; pfam01624 395492005477 MutS domain II; Region: MutS_II; pfam05188 395492005478 MutS family domain IV; Region: MutS_IV; pfam05190 395492005479 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 395492005480 Walker A/P-loop; other site 395492005481 ATP binding site [chemical binding]; other site 395492005482 Q-loop/lid; other site 395492005483 ABC transporter signature motif; other site 395492005484 Walker B; other site 395492005485 D-loop; other site 395492005486 H-loop/switch region; other site 395492005487 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 395492005488 Malic enzyme, N-terminal domain; Region: malic; pfam00390 395492005489 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 395492005490 putative NAD(P) binding site [chemical binding]; other site 395492005491 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 395492005492 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395492005493 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395492005494 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395492005495 PAS domain; Region: PAS_9; pfam13426 395492005496 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 395492005497 dimer interface [polypeptide binding]; other site 395492005498 phosphorylation site [posttranslational modification] 395492005499 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 395492005500 ATP binding site [chemical binding]; other site 395492005501 Mg2+ binding site [ion binding]; other site 395492005502 G-X-G motif; other site 395492005503 Response regulator receiver domain; Region: Response_reg; pfam00072 395492005504 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492005505 active site 395492005506 phosphorylation site [posttranslational modification] 395492005507 intermolecular recognition site; other site 395492005508 dimerization interface [polypeptide binding]; other site 395492005509 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 395492005510 lipoprotein signal peptidase; Provisional; Region: PRK14787 395492005511 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 395492005512 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 395492005513 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 395492005514 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 395492005515 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 395492005516 putative hydrophobic ligand binding site [chemical binding]; other site 395492005517 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 395492005518 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395492005519 Coenzyme A binding pocket [chemical binding]; other site 395492005520 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 395492005521 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 395492005522 IHF dimer interface [polypeptide binding]; other site 395492005523 IHF - DNA interface [nucleotide binding]; other site 395492005524 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 395492005525 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 395492005526 tandem repeat interface [polypeptide binding]; other site 395492005527 oligomer interface [polypeptide binding]; other site 395492005528 active site residues [active] 395492005529 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 395492005530 OstA-like protein; Region: OstA; cl00844 395492005531 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 395492005532 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 395492005533 Walker A/P-loop; other site 395492005534 ATP binding site [chemical binding]; other site 395492005535 Q-loop/lid; other site 395492005536 ABC transporter signature motif; other site 395492005537 Walker B; other site 395492005538 D-loop; other site 395492005539 H-loop/switch region; other site 395492005540 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 395492005541 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 395492005542 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 395492005543 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 395492005544 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 395492005545 EamA-like transporter family; Region: EamA; cl01037 395492005546 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site; Region: RaiA; cd00552 395492005547 30S subunit binding site; other site 395492005548 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 395492005549 active site 395492005550 phosphorylation site [posttranslational modification] 395492005551 Cache domain; Region: Cache_1; pfam02743 395492005552 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 395492005553 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 395492005554 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395492005555 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395492005556 dimer interface [polypeptide binding]; other site 395492005557 putative CheW interface [polypeptide binding]; other site 395492005558 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 395492005559 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 395492005560 substrate binding site [chemical binding]; other site 395492005561 dimer interface [polypeptide binding]; other site 395492005562 ATP binding site [chemical binding]; other site 395492005563 RmuC family; Region: RmuC; pfam02646 395492005564 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 395492005565 active site 395492005566 catalytic residues [active] 395492005567 metal binding site [ion binding]; metal-binding site 395492005568 bifunctional SbtC-like/phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Provisional; Region: PRK13982 395492005569 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 395492005570 oligomeric interface; other site 395492005571 putative active site [active] 395492005572 homodimer interface [polypeptide binding]; other site 395492005573 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 395492005574 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 395492005575 putative active site [active] 395492005576 substrate binding site [chemical binding]; other site 395492005577 putative cosubstrate binding site; other site 395492005578 catalytic site [active] 395492005579 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 395492005580 substrate binding site [chemical binding]; other site 395492005581 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 395492005582 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 395492005583 dimerization interface 3.5A [polypeptide binding]; other site 395492005584 active site 395492005585 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 395492005586 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 395492005587 metal binding site [ion binding]; metal-binding site 395492005588 dimer interface [polypeptide binding]; other site 395492005589 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 395492005590 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 395492005591 trimer interface [polypeptide binding]; other site 395492005592 active site 395492005593 substrate binding site [chemical binding]; other site 395492005594 CoA binding site [chemical binding]; other site 395492005595 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 395492005596 transaldolase/EF-hand domain-containing protein; Provisional; Region: PRK12309 395492005597 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl08302 395492005598 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl08302 395492005599 Ca2+ binding site [ion binding]; other site 395492005600 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 395492005601 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 395492005602 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 395492005603 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 395492005604 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 395492005605 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 395492005606 DNA binding site [nucleotide binding] 395492005607 active site 395492005608 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 395492005609 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 395492005610 tetramer interface [polypeptide binding]; other site 395492005611 active site 395492005612 Mg2+/Mn2+ binding site [ion binding]; other site 395492005613 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 395492005614 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 395492005615 phosphate binding site [ion binding]; other site 395492005616 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 395492005617 Di-iron ligands [ion binding]; other site 395492005618 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 395492005619 dimerization interface [polypeptide binding]; other site 395492005620 putative DNA binding site [nucleotide binding]; other site 395492005621 putative Zn2+ binding site [ion binding]; other site 395492005622 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 395492005623 feedback inhibition sensing region; other site 395492005624 homohexameric interface [polypeptide binding]; other site 395492005625 carbamate kinase; Reviewed; Region: PRK12686 395492005626 nucleotide binding site [chemical binding]; other site 395492005627 N-acetyl-L-glutamate binding site [chemical binding]; other site 395492005628 RNA polymerase sigma factor; Provisional; Region: PRK12514 395492005629 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395492005630 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 395492005631 DNA binding residues [nucleotide binding] 395492005632 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5343 395492005633 Anti-sigma-K factor rskA; Region: RskA; pfam10099 395492005634 Fasciclin domain; Region: Fasciclin; cl02663 395492005635 PAS domain S-box; Region: sensory_box; TIGR00229 395492005636 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 395492005637 Histidine kinase; Region: HisKA_2; cl06527 395492005638 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 395492005639 ATP binding site [chemical binding]; other site 395492005640 Mg2+ binding site [ion binding]; other site 395492005641 G-X-G motif; other site 395492005642 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 395492005643 DNA-binding site [nucleotide binding]; DNA binding site 395492005644 RNA-binding motif; other site 395492005645 Predicted GTPase [General function prediction only]; Region: COG0218 395492005646 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 395492005647 G1 box; other site 395492005648 GTP/Mg2+ binding site [chemical binding]; other site 395492005649 Switch I region; other site 395492005650 G2 box; other site 395492005651 G3 box; other site 395492005652 Switch II region; other site 395492005653 G4 box; other site 395492005654 G5 box; other site 395492005655 membrane protein insertase; Provisional; Region: PRK01318 395492005656 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 395492005657 Ribonuclease P; Region: Ribonuclease_P; cl00457 395492005658 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 395492005659 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 395492005660 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 395492005661 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395492005662 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395492005663 dimer interface [polypeptide binding]; other site 395492005664 putative CheW interface [polypeptide binding]; other site 395492005665 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395492005666 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 395492005667 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 395492005668 ATP binding site [chemical binding]; other site 395492005669 Mg2+ binding site [ion binding]; other site 395492005670 G-X-G motif; other site 395492005671 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 395492005672 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 395492005673 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 395492005674 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 395492005675 C-terminal domain of eIF4-gamma/eIF5/eIF2b-epsilon; Region: W2; cl16915 395492005676 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 395492005677 Helix-turn-helix domains; Region: HTH; cl00088 395492005678 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 395492005679 dimerization interface [polypeptide binding]; other site 395492005680 substrate binding pocket [chemical binding]; other site 395492005681 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 395492005682 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 395492005683 putative NAD(P) binding site [chemical binding]; other site 395492005684 putative active site [active] 395492005685 PPOX class probable FMN-dependent enzyme, alr4036 family; Region: PPOX_FMN_cyano; TIGR04026 395492005686 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 395492005687 protein-export membrane protein SecD; Region: secD; TIGR01129 395492005688 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 395492005689 S-adenosylmethionine binding site [chemical binding]; other site 395492005690 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 395492005691 mycofactocin system transcriptional regulator; Region: mycofact_TetR; TIGR03968 395492005692 Helix-turn-helix domains; Region: HTH; cl00088 395492005693 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 395492005694 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 395492005695 active site 395492005696 catalytic tetrad [active] 395492005697 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4782 395492005698 Alpha/beta hydrolase of unknown function (DUF900); Region: DUF900; pfam05990 395492005699 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 395492005700 IMP cyclohydrolase-like protein; Region: IMP_cyclohyd; cl01330 395492005701 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 395492005702 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 395492005703 TfoX N-terminal domain; Region: TfoX_N; cl01167 395492005704 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 395492005705 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395492005706 Helix-turn-helix domains; Region: HTH; cl00088 395492005707 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395492005708 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395492005709 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395492005710 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 395492005711 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 395492005712 putative NAD(P) binding site [chemical binding]; other site 395492005713 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 395492005714 FMN binding site [chemical binding]; other site 395492005715 active site 395492005716 substrate binding site [chemical binding]; other site 395492005717 catalytic residue [active] 395492005718 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395492005719 Helix-turn-helix domains; Region: HTH; cl00088 395492005720 acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional; Region: PRK14875 395492005721 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 395492005722 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 395492005723 conserved cys residue [active] 395492005724 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395492005725 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 395492005726 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395492005727 substrate binding pocket [chemical binding]; other site 395492005728 membrane-bound complex binding site; other site 395492005729 hinge residues; other site 395492005730 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 395492005731 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 395492005732 Walker A/P-loop; other site 395492005733 ATP binding site [chemical binding]; other site 395492005734 Q-loop/lid; other site 395492005735 ABC transporter signature motif; other site 395492005736 Walker B; other site 395492005737 D-loop; other site 395492005738 H-loop/switch region; other site 395492005739 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 395492005740 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492005741 dimer interface [polypeptide binding]; other site 395492005742 conserved gate region; other site 395492005743 putative PBP binding loops; other site 395492005744 ABC-ATPase subunit interface; other site 395492005745 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492005746 ABC-ATPase subunit interface; other site 395492005747 putative PBP binding loops; other site 395492005748 Peptidase C26; Region: Peptidase_C26; pfam07722 395492005749 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 395492005750 catalytic triad [active] 395492005751 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 395492005752 homotrimer interaction site [polypeptide binding]; other site 395492005753 putative active site [active] 395492005754 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 395492005755 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492005756 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 395492005757 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 395492005758 non-specific DNA interactions [nucleotide binding]; other site 395492005759 DNA binding site [nucleotide binding] 395492005760 sequence specific DNA binding site [nucleotide binding]; other site 395492005761 putative cAMP binding site [chemical binding]; other site 395492005762 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 395492005763 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 395492005764 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 395492005765 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 395492005766 ligand binding site [chemical binding]; other site 395492005767 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 395492005768 TM-ABC transporter signature motif; other site 395492005769 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 395492005770 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492005771 Walker A/P-loop; other site 395492005772 ATP binding site [chemical binding]; other site 395492005773 Q-loop/lid; other site 395492005774 ABC transporter signature motif; other site 395492005775 Walker B; other site 395492005776 D-loop; other site 395492005777 H-loop/switch region; other site 395492005778 nucleoside triphosphate hydrolase domain-containing protein; Reviewed; Region: PRK09270 395492005779 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492005780 active site 395492005781 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 395492005782 active site 395492005783 substrate binding pocket [chemical binding]; other site 395492005784 dimer interface [polypeptide binding]; other site 395492005785 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395492005786 metal binding site [ion binding]; metal-binding site 395492005787 active site 395492005788 I-site; other site 395492005789 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 395492005790 dimer interface [polypeptide binding]; other site 395492005791 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395492005792 ligand binding site [chemical binding]; other site 395492005793 Domain of unknown function (DUF1772); Region: DUF1772; cl12097 395492005794 Helix-turn-helix domains; Region: HTH; cl00088 395492005795 orotate phosphoribosyltransferase; Validated; Region: pyrE; PRK00455 395492005796 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 395492005797 active site 395492005798 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 395492005799 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 395492005800 putative substrate binding site [chemical binding]; other site 395492005801 putative ATP binding site [chemical binding]; other site 395492005802 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 395492005803 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 395492005804 active site 395492005805 homotetramer interface [polypeptide binding]; other site 395492005806 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 395492005807 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 395492005808 active site 395492005809 dimer interface [polypeptide binding]; other site 395492005810 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 395492005811 dimer interface [polypeptide binding]; other site 395492005812 active site 395492005813 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 395492005814 AMP-binding enzyme; Region: AMP-binding; cl15778 395492005815 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 395492005816 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 395492005817 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 395492005818 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 395492005819 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 395492005820 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395492005821 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 395492005822 dimer interface [polypeptide binding]; other site 395492005823 active site 395492005824 metal binding site [ion binding]; metal-binding site 395492005825 glutathione binding site [chemical binding]; other site 395492005826 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 395492005827 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 395492005828 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492005829 Walker A/P-loop; other site 395492005830 ATP binding site [chemical binding]; other site 395492005831 Q-loop/lid; other site 395492005832 ABC transporter signature motif; other site 395492005833 Walker B; other site 395492005834 D-loop; other site 395492005835 H-loop/switch region; other site 395492005836 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 395492005837 NMT1-like family; Region: NMT1_2; cl15260 395492005838 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 395492005839 Helix-turn-helix domains; Region: HTH; cl00088 395492005840 Helix-turn-helix domains; Region: HTH; cl00088 395492005841 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 395492005842 dimerization interface [polypeptide binding]; other site 395492005843 CutC family; Region: CutC; cl01218 395492005844 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 395492005845 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 395492005846 putative NAD(P) binding site [chemical binding]; other site 395492005847 catalytic Zn binding site [ion binding]; other site 395492005848 structural Zn binding site [ion binding]; other site 395492005849 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 395492005850 TM-ABC transporter signature motif; other site 395492005851 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 395492005852 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 395492005853 Walker A/P-loop; other site 395492005854 ATP binding site [chemical binding]; other site 395492005855 Q-loop/lid; other site 395492005856 ABC transporter signature motif; other site 395492005857 Walker B; other site 395492005858 D-loop; other site 395492005859 H-loop/switch region; other site 395492005860 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 395492005861 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 395492005862 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 395492005863 putative ligand binding site [chemical binding]; other site 395492005864 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 395492005865 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 395492005866 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 395492005867 active site 395492005868 catalytic tetrad [active] 395492005869 SAF domain; Region: SAF; cl00555 395492005870 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 395492005871 Altronate dehydratase [Carbohydrate transport and metabolism]; Region: UxaA; COG2721 395492005872 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395492005873 DNA-binding site [nucleotide binding]; DNA binding site 395492005874 Transcriptional regulators [Transcription]; Region: GntR; COG1802 395492005875 Helix-turn-helix domains; Region: HTH; cl00088 395492005876 DNA-binding site [nucleotide binding]; DNA binding site 395492005877 FCD domain; Region: FCD; cl11656 395492005878 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 395492005879 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 395492005880 Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome. The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed...; Region: ABCD_peroxisomal_ALDP; cd03223 395492005881 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 395492005882 Helix-turn-helix domains; Region: HTH; cl00088 395492005883 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395492005884 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395492005885 putative substrate translocation pore; other site 395492005886 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 395492005887 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 395492005888 FMN binding site [chemical binding]; other site 395492005889 substrate binding site [chemical binding]; other site 395492005890 putative catalytic residue [active] 395492005891 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 395492005892 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 395492005893 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 395492005894 dimer interface [polypeptide binding]; other site 395492005895 phosphorylation site [posttranslational modification] 395492005896 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 395492005897 ATP binding site [chemical binding]; other site 395492005898 Mg2+ binding site [ion binding]; other site 395492005899 G-X-G motif; other site 395492005900 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492005901 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 395492005902 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 395492005903 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492005904 dimer interface [polypeptide binding]; other site 395492005905 conserved gate region; other site 395492005906 putative PBP binding loops; other site 395492005907 ABC-ATPase subunit interface; other site 395492005908 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 395492005909 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 395492005910 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492005911 dimer interface [polypeptide binding]; other site 395492005912 conserved gate region; other site 395492005913 putative PBP binding loops; other site 395492005914 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 395492005915 ABC-ATPase subunit interface; other site 395492005916 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 395492005917 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 395492005918 Walker A/P-loop; other site 395492005919 ATP binding site [chemical binding]; other site 395492005920 Q-loop/lid; other site 395492005921 ABC transporter signature motif; other site 395492005922 Walker B; other site 395492005923 D-loop; other site 395492005924 H-loop/switch region; other site 395492005925 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 395492005926 PhoU domain; Region: PhoU; pfam01895 395492005927 PhoU domain; Region: PhoU; pfam01895 395492005928 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 395492005929 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492005930 active site 395492005931 phosphorylation site [posttranslational modification] 395492005932 intermolecular recognition site; other site 395492005933 dimerization interface [polypeptide binding]; other site 395492005934 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 395492005935 DNA binding site [nucleotide binding] 395492005936 GcrA cell cycle regulator; Region: GcrA; cl11564 395492005937 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 395492005938 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 395492005939 inhibitor-cofactor binding pocket; inhibition site 395492005940 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492005941 catalytic residue [active] 395492005942 ornithine carbamoyltransferase; Provisional; Region: PRK00779 395492005943 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 395492005944 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492005945 Disulfide bond chaperones of the HSP33 family [Posttranslational modification, protein turnover, chaperones]; Region: COG1281 395492005946 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 395492005947 dimerization interface [polypeptide binding]; other site 395492005948 domain crossover interface; other site 395492005949 redox-dependent activation switch; other site 395492005950 Protein of unknown function (DUF525); Region: DUF525; cl01119 395492005951 O-succinylhomoserine sulfhydrylase; Reviewed; Region: PRK07504 395492005952 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 395492005953 homodimer interface [polypeptide binding]; other site 395492005954 substrate-cofactor binding pocket; other site 395492005955 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492005956 catalytic residue [active] 395492005957 2'-deoxycytidine 5'-triphosphate deaminase; Provisional; Region: PRK07559 395492005958 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 395492005959 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 395492005960 trimer interface [polypeptide binding]; other site 395492005961 active site 395492005962 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 395492005963 trimer interface [polypeptide binding]; other site 395492005964 active site 395492005965 Divergent AAA domain; Region: AAA_4; pfam04326 395492005966 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 395492005967 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395492005968 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 395492005969 active site 395492005970 metal binding site [ion binding]; metal-binding site 395492005971 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 395492005972 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395492005973 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395492005974 dimer interface [polypeptide binding]; other site 395492005975 putative CheW interface [polypeptide binding]; other site 395492005976 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395492005977 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 395492005978 substrate binding pocket [chemical binding]; other site 395492005979 membrane-bound complex binding site; other site 395492005980 hinge residues; other site 395492005981 tellurite resistance protein terB; Region: terB; cd07176 395492005982 putative metal binding site [ion binding]; other site 395492005983 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 395492005984 Predicted transcriptional regulator [Transcription]; Region: COG2932 395492005985 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 395492005986 Catalytic site [active] 395492005987 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 395492005988 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492005989 active site 395492005990 phosphorylation site [posttranslational modification] 395492005991 intermolecular recognition site; other site 395492005992 dimerization interface [polypeptide binding]; other site 395492005993 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 395492005994 DNA binding residues [nucleotide binding] 395492005995 dimerization interface [polypeptide binding]; other site 395492005996 Protein of unknown function (DUF952); Region: DUF952; cl01393 395492005997 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 395492005998 quinone interaction residues [chemical binding]; other site 395492005999 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 395492006000 active site 395492006001 catalytic residues [active] 395492006002 FMN binding site [chemical binding]; other site 395492006003 substrate binding site [chemical binding]; other site 395492006004 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 395492006005 MatE; Region: MatE; cl10513 395492006006 MatE; Region: MatE; cl10513 395492006007 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 395492006008 Predicted methyltransferase (contains TPR repeat) [General function prediction only]; Region: COG4976 395492006009 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 395492006010 Uncharacterized conserved protein [Function unknown]; Region: COG1284 395492006011 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 395492006012 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 395492006013 Predicted transcriptional regulator [Transcription]; Region: COG1959 395492006014 Helix-turn-helix domains; Region: HTH; cl00088 395492006015 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 395492006016 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 395492006017 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 395492006018 ATP binding site [chemical binding]; other site 395492006019 putative Mg++ binding site [ion binding]; other site 395492006020 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 395492006021 nucleotide binding region [chemical binding]; other site 395492006022 ATP-binding site [chemical binding]; other site 395492006023 DEAD/H associated; Region: DEAD_assoc; pfam08494 395492006024 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 395492006025 putative active site [active] 395492006026 putative metal binding site [ion binding]; other site 395492006027 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 395492006028 N-acetyl-D-glucosamine binding site [chemical binding]; other site 395492006029 catalytic residue [active] 395492006030 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 395492006031 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395492006032 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 395492006033 NADP+ binding site [chemical binding]; other site 395492006034 folate binding site [chemical binding]; other site 395492006035 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 395492006036 Putative transmembrane protein (Alph_Pro_TM); Region: Alph_Pro_TM; cl09826 395492006037 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 395492006038 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 395492006039 Sel1 repeat; Region: Sel1; cl02723 395492006040 Sel1 repeat; Region: Sel1; cl02723 395492006041 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 395492006042 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395492006043 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_9; cd07245 395492006044 dimer interface [polypeptide binding]; other site 395492006045 putative metal binding site [ion binding]; other site 395492006046 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 395492006047 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492006048 NAD(P) binding site [chemical binding]; other site 395492006049 active site 395492006050 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 395492006051 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 395492006052 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 395492006053 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 395492006054 FAD binding site [chemical binding]; other site 395492006055 substrate binding site [chemical binding]; other site 395492006056 catalytic residues [active] 395492006057 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 395492006058 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 395492006059 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 395492006060 dimer interface [polypeptide binding]; other site 395492006061 active site 395492006062 Cupin domain; Region: Cupin_2; cl09118 395492006063 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 395492006064 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 395492006065 substrate binding site [chemical binding]; other site 395492006066 oxyanion hole (OAH) forming residues; other site 395492006067 trimer interface [polypeptide binding]; other site 395492006068 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492006069 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 395492006070 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 395492006071 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 395492006072 DNA-binding site [nucleotide binding]; DNA binding site 395492006073 RNA-binding motif; other site 395492006074 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 395492006075 Helix-turn-helix domains; Region: HTH; cl00088 395492006076 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 395492006077 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 395492006078 Cache domain; Region: Cache_1; pfam02743 395492006079 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395492006080 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395492006081 dimer interface [polypeptide binding]; other site 395492006082 putative CheW interface [polypeptide binding]; other site 395492006083 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 395492006084 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395492006085 Helix-turn-helix domains; Region: HTH; cl00088 395492006086 Sodium:solute symporter family; Region: SSF; cl00456 395492006087 PAS fold; Region: PAS_7; pfam12860 395492006088 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 395492006089 dimer interface [polypeptide binding]; other site 395492006090 phosphorylation site [posttranslational modification] 395492006091 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 395492006092 ATP binding site [chemical binding]; other site 395492006093 Mg2+ binding site [ion binding]; other site 395492006094 G-X-G motif; other site 395492006095 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395492006096 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492006097 active site 395492006098 phosphorylation site [posttranslational modification] 395492006099 intermolecular recognition site; other site 395492006100 dimerization interface [polypeptide binding]; other site 395492006101 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 395492006102 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 395492006103 aspartate aminotransferase; Provisional; Region: PRK06108 395492006104 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 395492006105 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492006106 homodimer interface [polypeptide binding]; other site 395492006107 catalytic residue [active] 395492006108 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 395492006109 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 395492006110 NAD binding site [chemical binding]; other site 395492006111 homodimer interface [polypeptide binding]; other site 395492006112 active site 395492006113 substrate binding site [chemical binding]; other site 395492006114 Predicted signal transduction protein containing a membrane domain, an EAL and a GGDEF domain [Signal transduction mechanisms]; Region: COG5001 395492006115 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395492006116 metal binding site [ion binding]; metal-binding site 395492006117 active site 395492006118 I-site; other site 395492006119 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 395492006120 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 395492006121 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 395492006122 substrate binding site [chemical binding]; other site 395492006123 oxyanion hole (OAH) forming residues; other site 395492006124 trimer interface [polypeptide binding]; other site 395492006125 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 395492006126 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 395492006127 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492006128 Family description; Region: UvrD_C_2; cl15862 395492006129 Protein of unknown function (DUF982); Region: DUF982; pfam06169 395492006130 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 395492006131 UDP-N-acetylglucosamine enolpyruvyl transferase catalyzes enolpyruvyl transfer as part of the first step in the biosynthesis of peptidoglycan, a component of the bacterial cell wall. The reaction is phosphoenolpyruvate + UDP-N-acetyl-D-glucosamine =...; Region: UdpNAET; cd01555 395492006132 hinge; other site 395492006133 active site 395492006134 Protein of unknown function (DUF2948); Region: DUF2948; pfam11164 395492006135 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 395492006136 histidinol dehydrogenase; Region: hisD; TIGR00069 395492006137 NAD binding site [chemical binding]; other site 395492006138 dimerization interface [polypeptide binding]; other site 395492006139 product binding site; other site 395492006140 substrate binding site [chemical binding]; other site 395492006141 zinc binding site [ion binding]; other site 395492006142 catalytic residues [active] 395492006143 Uncharacterized protein family (UPF0262); Region: UPF0262; cl11489 395492006144 Low molecular weight phosphatase family; Region: LMWPc; cd00115 395492006145 active site 395492006146 S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain. IF1 contains an S1-like RNA-binding domain, which is found in a wide variety of RNA-associated proteins. Translation initiation includes a number of interrelated steps preceding the...; Region: S1_IF1; cd04451 395492006147 rRNA binding site [nucleotide binding]; other site 395492006148 predicted 30S ribosome binding site; other site 395492006149 Maf-like protein; Region: Maf; pfam02545 395492006150 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 395492006151 active site 395492006152 dimer interface [polypeptide binding]; other site 395492006153 Domain of unknown function (DUF329); Region: DUF329; cl01144 395492006154 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 395492006155 DNA-binding interface [nucleotide binding]; DNA binding site 395492006156 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 395492006157 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395492006158 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395492006159 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 395492006160 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492006161 Walker A/P-loop; other site 395492006162 ATP binding site [chemical binding]; other site 395492006163 Q-loop/lid; other site 395492006164 ABC transporter signature motif; other site 395492006165 Walker B; other site 395492006166 D-loop; other site 395492006167 H-loop/switch region; other site 395492006168 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 395492006169 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 395492006170 DNA binding residues [nucleotide binding] 395492006171 dimerization interface [polypeptide binding]; other site 395492006172 two component system sensor kinase SsrA; Provisional; Region: PRK15347 395492006173 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 395492006174 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395492006175 metal binding site [ion binding]; metal-binding site 395492006176 active site 395492006177 I-site; other site 395492006178 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492006179 short chain dehydrogenase; Provisional; Region: PRK07060 395492006180 NAD(P) binding site [chemical binding]; other site 395492006181 active site 395492006182 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395492006183 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395492006184 Walker A/P-loop; other site 395492006185 ATP binding site [chemical binding]; other site 395492006186 Q-loop/lid; other site 395492006187 ABC transporter signature motif; other site 395492006188 Walker B; other site 395492006189 D-loop; other site 395492006190 H-loop/switch region; other site 395492006191 TOBE domain; Region: TOBE_2; cl01440 395492006192 Predicted small integral membrane protein (DUF2160); Region: DUF2160; cl02294 395492006193 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395492006194 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492006195 dimer interface [polypeptide binding]; other site 395492006196 conserved gate region; other site 395492006197 putative PBP binding loops; other site 395492006198 ABC-ATPase subunit interface; other site 395492006199 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 395492006200 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492006201 dimer interface [polypeptide binding]; other site 395492006202 conserved gate region; other site 395492006203 putative PBP binding loops; other site 395492006204 ABC-ATPase subunit interface; other site 395492006205 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395492006206 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492006207 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 395492006208 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 395492006209 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 395492006210 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 395492006211 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 395492006212 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 395492006213 substrate binding site [chemical binding]; other site 395492006214 ATP binding site [chemical binding]; other site 395492006215 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; cl09211 395492006216 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 395492006217 classical (c) SDRs; Region: SDR_c; cd05233 395492006218 NAD(P) binding site [chemical binding]; other site 395492006219 active site 395492006220 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492006221 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 395492006222 NAD(P) binding site [chemical binding]; other site 395492006223 active site 395492006224 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 395492006225 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 395492006226 catalytic residue [active] 395492006227 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395492006228 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492006229 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 395492006230 substrate binding site [chemical binding]; other site 395492006231 ATP binding site [chemical binding]; other site 395492006232 sorbitol dehydrogenase; Provisional; Region: PRK07067 395492006233 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492006234 NAD(P) binding site [chemical binding]; other site 395492006235 active site 395492006236 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 395492006237 L-threonine dehydrogenase; Region: threonine_DH_like; cd08234 395492006238 putative NAD(P) binding site [chemical binding]; other site 395492006239 catalytic Zn binding site [ion binding]; other site 395492006240 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395492006241 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395492006242 DNA binding site [nucleotide binding] 395492006243 domain linker motif; other site 395492006244 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 395492006245 dimerization interface [polypeptide binding]; other site 395492006246 ligand binding site [chemical binding]; other site 395492006247 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395492006248 Right handed beta helix region; Region: Beta_helix; pfam13229 395492006249 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 395492006250 O-Antigen ligase; Region: Wzy_C; cl04850 395492006251 Ku-homolog [Replication, recombination, and repair]; Region: COG1273 395492006252 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 395492006253 putative DNA binding site [nucleotide binding]; other site 395492006254 putative homodimer interface [polypeptide binding]; other site 395492006255 Ku-homolog [Replication, recombination, and repair]; Region: COG1273 395492006256 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 395492006257 putative DNA binding site [nucleotide binding]; other site 395492006258 putative homodimer interface [polypeptide binding]; other site 395492006259 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 395492006260 OsmC-like protein; Region: OsmC; cl00767 395492006261 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492006262 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 395492006263 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 395492006264 EamA-like transporter family; Region: EamA; cl01037 395492006265 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 395492006266 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395492006267 Zn binding site [ion binding]; other site 395492006268 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 395492006269 Zn binding site [ion binding]; other site 395492006270 Predicted esterase [General function prediction only]; Region: COG0400 395492006271 Response regulator receiver domain; Region: Response_reg; pfam00072 395492006272 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492006273 active site 395492006274 phosphorylation site [posttranslational modification] 395492006275 intermolecular recognition site; other site 395492006276 dimerization interface [polypeptide binding]; other site 395492006277 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 395492006278 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 395492006279 dimer interface [polypeptide binding]; other site 395492006280 phosphorylation site [posttranslational modification] 395492006281 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 395492006282 ATP binding site [chemical binding]; other site 395492006283 Mg2+ binding site [ion binding]; other site 395492006284 G-X-G motif; other site 395492006285 Response regulator receiver domain; Region: Response_reg; pfam00072 395492006286 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492006287 active site 395492006288 phosphorylation site [posttranslational modification] 395492006289 intermolecular recognition site; other site 395492006290 dimerization interface [polypeptide binding]; other site 395492006291 Response regulator receiver domain; Region: Response_reg; pfam00072 395492006292 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492006293 active site 395492006294 phosphorylation site [posttranslational modification] 395492006295 intermolecular recognition site; other site 395492006296 dimerization interface [polypeptide binding]; other site 395492006297 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 395492006298 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395492006299 putative active site [active] 395492006300 heme pocket [chemical binding]; other site 395492006301 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 395492006302 dimer interface [polypeptide binding]; other site 395492006303 phosphorylation site [posttranslational modification] 395492006304 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 395492006305 ATP binding site [chemical binding]; other site 395492006306 Mg2+ binding site [ion binding]; other site 395492006307 G-X-G motif; other site 395492006308 Response regulator receiver domain; Region: Response_reg; pfam00072 395492006309 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492006310 active site 395492006311 phosphorylation site [posttranslational modification] 395492006312 intermolecular recognition site; other site 395492006313 dimerization interface [polypeptide binding]; other site 395492006314 LuxR family transcriptional regulatory, chaperone HchA-associated; Region: reg_near_HchA; TIGR03541 395492006315 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 395492006316 DNA binding residues [nucleotide binding] 395492006317 dimerization interface [polypeptide binding]; other site 395492006318 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395492006319 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492006320 active site 395492006321 phosphorylation site [posttranslational modification] 395492006322 intermolecular recognition site; other site 395492006323 dimerization interface [polypeptide binding]; other site 395492006324 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 395492006325 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 395492006326 ATP binding site [chemical binding]; other site 395492006327 Mg2+ binding site [ion binding]; other site 395492006328 G-X-G motif; other site 395492006329 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 395492006330 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 395492006331 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 395492006332 Protein export membrane protein; Region: SecD_SecF; cl14618 395492006333 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 395492006334 Protein export membrane protein; Region: SecD_SecF; cl14618 395492006335 putative cation:proton antiport protein; Provisional; Region: PRK10669 395492006336 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 395492006337 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492006338 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 395492006339 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 395492006340 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 395492006341 heme-binding site [chemical binding]; other site 395492006342 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395492006343 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395492006344 dimer interface [polypeptide binding]; other site 395492006345 putative CheW interface [polypeptide binding]; other site 395492006346 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 395492006347 Response regulator receiver domain; Region: Response_reg; pfam00072 395492006348 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492006349 active site 395492006350 phosphorylation site [posttranslational modification] 395492006351 intermolecular recognition site; other site 395492006352 dimerization interface [polypeptide binding]; other site 395492006353 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 395492006354 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 395492006355 putative binding surface; other site 395492006356 active site 395492006357 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 395492006358 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 395492006359 ATP binding site [chemical binding]; other site 395492006360 Mg2+ binding site [ion binding]; other site 395492006361 G-X-G motif; other site 395492006362 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 395492006363 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 395492006364 putative CheA interaction surface; other site 395492006365 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 395492006366 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 395492006367 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 395492006368 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 395492006369 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492006370 active site 395492006371 phosphorylation site [posttranslational modification] 395492006372 intermolecular recognition site; other site 395492006373 dimerization interface [polypeptide binding]; other site 395492006374 CheB methylesterase; Region: CheB_methylest; pfam01339 395492006375 Response regulator receiver domain; Region: Response_reg; pfam00072 395492006376 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492006377 active site 395492006378 phosphorylation site [posttranslational modification] 395492006379 intermolecular recognition site; other site 395492006380 dimerization interface [polypeptide binding]; other site 395492006381 CheD chemotactic sensory transduction; Region: CheD; cl00810 395492006382 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 395492006383 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 395492006384 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 395492006385 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 395492006386 DNA binding residues [nucleotide binding] 395492006387 dimerization interface [polypeptide binding]; other site 395492006388 LuxR family transcriptional regulatory, chaperone HchA-associated; Region: reg_near_HchA; TIGR03541 395492006389 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 395492006390 DNA binding residues [nucleotide binding] 395492006391 dimerization interface [polypeptide binding]; other site 395492006392 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 395492006393 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 395492006394 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 395492006395 MgtE intracellular N domain; Region: MgtE_N; cl15244 395492006396 FliG C-terminal domain; Region: FliG_C; pfam01706 395492006397 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 395492006398 Flagellar motor switch protein [Cell motility and secretion]; Region: FliM; COG1868 395492006399 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 395492006400 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 395492006401 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 395492006402 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12642 395492006403 Flagella basal body rod protein; Region: Flg_bb_rod; cl16924 395492006404 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 395492006405 flagellum-specific ATP synthase; Validated; Region: fliI; PRK06002 395492006406 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492006407 Walker A motif; other site 395492006408 ATP binding site [chemical binding]; other site 395492006409 Walker B motif; other site 395492006410 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK06003 395492006411 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK12782 395492006412 Flagella basal body rod protein; Region: Flg_bb_rod; cl16924 395492006413 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 395492006414 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 395492006415 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12691 395492006416 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 395492006417 SAF domain; Region: SAF; cl00555 395492006418 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 395492006419 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 395492006420 MgtE intracellular N domain; Region: MgtE_N; cl15244 395492006421 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 395492006422 Flagellar L-ring protein; Region: FlgH; cl00905 395492006423 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 395492006424 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 395492006425 FliP family; Region: FliP; cl00593 395492006426 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 395492006427 flagellin; Reviewed; Region: PRK12687 395492006428 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 395492006429 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 395492006430 flagellin; Reviewed; Region: PRK12687 395492006431 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 395492006432 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 395492006433 flagellin; Reviewed; Region: PRK12687 395492006434 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 395492006435 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 395492006436 flagellin; Reviewed; Region: PRK12687 395492006437 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 395492006438 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 395492006439 flagellar motor protein MotB; Validated; Region: motB; PRK05996 395492006440 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 395492006441 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 395492006442 ligand binding site [chemical binding]; other site 395492006443 chemotaxis protein; Reviewed; Region: PRK12798 395492006444 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 395492006445 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 395492006446 N-acetyl-D-glucosamine binding site [chemical binding]; other site 395492006447 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 395492006448 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 395492006449 active site 395492006450 phosphorylation site [posttranslational modification] 395492006451 intermolecular recognition site; other site 395492006452 dimerization interface [polypeptide binding]; other site 395492006453 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 395492006454 DNA binding site [nucleotide binding] 395492006455 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 395492006456 Flagella basal body rod protein; Region: Flg_bb_rod; cl16924 395492006457 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 395492006458 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 395492006459 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07521 395492006460 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK06008 395492006461 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 395492006462 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 395492006463 Flagellar protein FlaF; Region: FlaF; cl11454 395492006464 Flagellar protein FlbT; Region: FlbT; cl11455 395492006465 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06009 395492006466 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 395492006467 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 395492006468 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; COG1298 395492006469 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 395492006470 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 395492006471 flagellar rod assembly protein/muramidase FlgJ; Provisional; Region: flgJ; PRK12710 395492006472 Rod binding protein; Region: Rod-binding; cl01626 395492006473 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 395492006474 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 395492006475 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 395492006476 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 395492006477 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 395492006478 homodimer interface [polypeptide binding]; other site 395492006479 NADP binding site [chemical binding]; other site 395492006480 substrate binding site [chemical binding]; other site 395492006481 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395492006482 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395492006483 DNA binding site [nucleotide binding] 395492006484 domain linker motif; other site 395492006485 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 395492006486 ligand binding site [chemical binding]; other site 395492006487 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395492006488 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492006489 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492006490 dimer interface [polypeptide binding]; other site 395492006491 conserved gate region; other site 395492006492 putative PBP binding loops; other site 395492006493 ABC-ATPase subunit interface; other site 395492006494 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492006495 dimer interface [polypeptide binding]; other site 395492006496 conserved gate region; other site 395492006497 putative PBP binding loops; other site 395492006498 ABC-ATPase subunit interface; other site 395492006499 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu; cd11330 395492006500 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 395492006501 active site 395492006502 catalytic site [active] 395492006503 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395492006504 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395492006505 Walker A/P-loop; other site 395492006506 ATP binding site [chemical binding]; other site 395492006507 Q-loop/lid; other site 395492006508 ABC transporter signature motif; other site 395492006509 Walker B; other site 395492006510 D-loop; other site 395492006511 H-loop/switch region; other site 395492006512 TOBE domain; Region: TOBE_2; cl01440 395492006513 TOBE domain; Region: TOBE_2; cl01440 395492006514 Dehydratase family; Region: ILVD_EDD; cl00340 395492006515 6-phosphogluconate dehydratase; Region: edd; TIGR01196 395492006516 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 395492006517 putative active site [active] 395492006518 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 395492006519 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 395492006520 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 395492006521 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492006522 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 395492006523 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 395492006524 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 395492006525 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 395492006526 HI0933-like protein; Region: HI0933_like; pfam03486 395492006527 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492006528 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 395492006529 dimerization interface [polypeptide binding]; other site 395492006530 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395492006531 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395492006532 dimer interface [polypeptide binding]; other site 395492006533 putative CheW interface [polypeptide binding]; other site 395492006534 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 395492006535 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395492006536 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395492006537 dimer interface [polypeptide binding]; other site 395492006538 putative CheW interface [polypeptide binding]; other site 395492006539 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395492006540 Helix-turn-helix domains; Region: HTH; cl00088 395492006541 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492006542 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 395492006543 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 395492006544 tetramer interface [polypeptide binding]; other site 395492006545 active site 395492006546 Mg2+/Mn2+ binding site [ion binding]; other site 395492006547 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 395492006548 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 395492006549 non-specific DNA binding site [nucleotide binding]; other site 395492006550 salt bridge; other site 395492006551 sequence-specific DNA binding site [nucleotide binding]; other site 395492006552 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 395492006553 Domain of unknown function (DUF955); Region: DUF955; cl01076 395492006554 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 395492006555 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 395492006556 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492006557 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 395492006558 PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D. PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required...; Region: ABC_PotA_N; cd03300 395492006559 Walker A/P-loop; other site 395492006560 ATP binding site [chemical binding]; other site 395492006561 Q-loop/lid; other site 395492006562 ABC transporter signature motif; other site 395492006563 Walker B; other site 395492006564 D-loop; other site 395492006565 H-loop/switch region; other site 395492006566 TOBE domain; Region: TOBE_2; cl01440 395492006567 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 395492006568 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492006569 dimer interface [polypeptide binding]; other site 395492006570 conserved gate region; other site 395492006571 putative PBP binding loops; other site 395492006572 ABC-ATPase subunit interface; other site 395492006573 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 395492006574 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492006575 dimer interface [polypeptide binding]; other site 395492006576 conserved gate region; other site 395492006577 putative PBP binding loops; other site 395492006578 ABC-ATPase subunit interface; other site 395492006579 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 395492006580 AsmA-like C-terminal region; Region: AsmA_2; cl15864 395492006581 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 395492006582 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 395492006583 AMP-binding enzyme; Region: AMP-binding; cl15778 395492006584 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 395492006585 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 395492006586 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 395492006587 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 395492006588 dimer interface [polypeptide binding]; other site 395492006589 phosphorylation site [posttranslational modification] 395492006590 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 395492006591 ATP binding site [chemical binding]; other site 395492006592 Mg2+ binding site [ion binding]; other site 395492006593 G-X-G motif; other site 395492006594 Phasin protein; Region: Phasin_2; cl11491 395492006595 Domain of unknown function (DUF4174); Region: DUF4174; pfam13778 395492006596 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395492006597 Helix-turn-helix domains; Region: HTH; cl00088 395492006598 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492006599 dimerization interface [polypeptide binding]; other site 395492006600 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 395492006601 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 395492006602 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395492006603 tetrameric interface [polypeptide binding]; other site 395492006604 NAD binding site [chemical binding]; other site 395492006605 catalytic residues [active] 395492006606 Bacterial protein of unknown function (DUF898); Region: DUF898; cl01738 395492006607 Peptidase family M48; Region: Peptidase_M48; cl12018 395492006608 Helix-turn-helix domains; Region: HTH; cl00088 395492006609 Rrf2 family protein; Region: rrf2_super; TIGR00738 395492006610 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 395492006611 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 395492006612 peptide binding site [polypeptide binding]; other site 395492006613 dipeptide transporter permease DppB; Provisional; Region: PRK10914 395492006614 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492006615 dimer interface [polypeptide binding]; other site 395492006616 conserved gate region; other site 395492006617 putative PBP binding loops; other site 395492006618 ABC-ATPase subunit interface; other site 395492006619 dipeptide transporter; Provisional; Region: PRK10913 395492006620 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492006621 dimer interface [polypeptide binding]; other site 395492006622 conserved gate region; other site 395492006623 putative PBP binding loops; other site 395492006624 ABC-ATPase subunit interface; other site 395492006625 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 395492006626 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395492006627 Walker A/P-loop; other site 395492006628 ATP binding site [chemical binding]; other site 395492006629 Q-loop/lid; other site 395492006630 ABC transporter signature motif; other site 395492006631 Walker B; other site 395492006632 D-loop; other site 395492006633 H-loop/switch region; other site 395492006634 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395492006635 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 395492006636 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395492006637 Walker A/P-loop; other site 395492006638 ATP binding site [chemical binding]; other site 395492006639 Q-loop/lid; other site 395492006640 ABC transporter signature motif; other site 395492006641 Walker B; other site 395492006642 D-loop; other site 395492006643 H-loop/switch region; other site 395492006644 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395492006645 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 395492006646 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 395492006647 ATP-binding site [chemical binding]; other site 395492006648 Gluconate-6-phosphate binding site [chemical binding]; other site 395492006649 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 395492006650 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492006651 Phospholipid methyltransferase; Region: PEMT; cl00763 395492006652 Chalcone and stilbene synthases; plant-specific polyketide synthases (PKS) and related enzymes, also called type III PKSs. PKS generate an array of different products, dependent on the nature of the starter molecule. They share a common chemical strategy; Region: CHS_like; cd00831 395492006653 Predicted naringenin-chalcone synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BcsA; COG3424 395492006654 malonyl-CoA binding site [chemical binding]; other site 395492006655 dimer interface [polypeptide binding]; other site 395492006656 active site 395492006657 product binding site; other site 395492006658 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 395492006659 TPR motif; other site 395492006660 Tetratricopeptide repeat; Region: TPR_16; pfam13432 395492006661 binding surface 395492006662 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395492006663 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 395492006664 DNA binding residues [nucleotide binding] 395492006665 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 395492006666 putative glycosyl transferase; Provisional; Region: PRK10063 395492006667 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 395492006668 metal-binding site 395492006669 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 395492006670 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 395492006671 substrate binding site; other site 395492006672 tetramer interface; other site 395492006673 Cupin domain; Region: Cupin_2; cl09118 395492006674 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 395492006675 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 395492006676 inhibitor-cofactor binding pocket; inhibition site 395492006677 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492006678 catalytic residue [active] 395492006679 ABC-2 type transporter; Region: ABC2_membrane; cl11417 395492006680 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 395492006681 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 395492006682 Walker A/P-loop; other site 395492006683 ATP binding site [chemical binding]; other site 395492006684 Q-loop/lid; other site 395492006685 ABC transporter signature motif; other site 395492006686 Walker B; other site 395492006687 D-loop; other site 395492006688 H-loop/switch region; other site 395492006689 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 395492006690 putative carbohydrate binding site [chemical binding]; other site 395492006691 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 395492006692 NAD dependent epimerase/dehydratase, LLPSF_EDH_00030 family; Region: EDH_00030; TIGR04180 395492006693 NAD binding site [chemical binding]; other site 395492006694 substrate binding site [chemical binding]; other site 395492006695 active site 395492006696 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 395492006697 active site 395492006698 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492006699 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395492006700 NAD(P) binding site [chemical binding]; other site 395492006701 active site 395492006702 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 395492006703 FeS/SAM binding site; other site 395492006704 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 395492006705 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 395492006706 NeuB family; Region: NeuB; cl00496 395492006707 SAF domain; Region: SAF; cl00555 395492006708 SpsF is a glycosyltrnasferase implicated in the synthesis of the spore coat; Region: GT2_SpsF; cd02518 395492006709 ligand binding site; other site 395492006710 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 395492006711 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 395492006712 WbqC-like protein family; Region: WbqC; pfam08889 395492006713 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 395492006714 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 395492006715 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 395492006716 active site 395492006717 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 395492006718 S-adenosylmethionine binding site [chemical binding]; other site 395492006719 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 395492006720 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 395492006721 S-adenosylmethionine binding site [chemical binding]; other site 395492006722 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 395492006723 active site 395492006724 GDP-mannose 4,6-dehydratase; Region: gmd; TIGR01472 395492006725 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 395492006726 NADP-binding site; other site 395492006727 homotetramer interface [polypeptide binding]; other site 395492006728 substrate binding site [chemical binding]; other site 395492006729 homodimer interface [polypeptide binding]; other site 395492006730 active site 395492006731 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 395492006732 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 395492006733 NADP binding site [chemical binding]; other site 395492006734 active site 395492006735 putative substrate binding site [chemical binding]; other site 395492006736 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 395492006737 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 395492006738 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 395492006739 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 395492006740 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395492006741 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395492006742 putative substrate translocation pore; other site 395492006743 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 395492006744 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 395492006745 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 395492006746 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a key...; Region: CBS_pair_IMPDH; cd04601 395492006747 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the guanine...; Region: IMPDH; cd00381 395492006748 active site 395492006749 LysR family transcriptional regulator; Provisional; Region: PRK14997 395492006750 Helix-turn-helix domains; Region: HTH; cl00088 395492006751 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 395492006752 putative effector binding pocket; other site 395492006753 dimerization interface [polypeptide binding]; other site 395492006754 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 395492006755 classical (c) SDRs; Region: SDR_c; cd05233 395492006756 NAD(P) binding site [chemical binding]; other site 395492006757 active site 395492006758 MAPEG family; Region: MAPEG; cl09190 395492006759 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395492006760 Helix-turn-helix domains; Region: HTH; cl00088 395492006761 DNA-binding transcriptional repressor LrhA; Provisional; Region: PRK15092 395492006762 Helix-turn-helix domains; Region: HTH; cl00088 395492006763 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492006764 dimerization interface [polypeptide binding]; other site 395492006765 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 395492006766 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 395492006767 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 395492006768 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 395492006769 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 395492006770 Phosphate transporter family; Region: PHO4; cl00396 395492006771 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_9; cd04666 395492006772 nudix motif; other site 395492006773 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 395492006774 Helix-turn-helix domains; Region: HTH; cl00088 395492006775 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492006776 dimerization interface [polypeptide binding]; other site 395492006777 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492006778 oligomerization interface [polypeptide binding]; other site 395492006779 active site 395492006780 NAD+ binding site [chemical binding]; other site 395492006781 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR6; cd08272 395492006782 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 395492006783 putative NAD(P) binding site [chemical binding]; other site 395492006784 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395492006785 Helix-turn-helix domains; Region: HTH; cl00088 395492006786 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492006787 dimerization interface [polypeptide binding]; other site 395492006788 Helix-turn-helix domains; Region: HTH; cl00088 395492006789 transcriptional activator TtdR; Provisional; Region: PRK09801 395492006790 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 395492006791 putative effector binding pocket; other site 395492006792 dimerization interface [polypeptide binding]; other site 395492006793 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 395492006794 FAD binding domain; Region: FAD_binding_4; pfam01565 395492006795 FAD binding domain; Region: FAD_binding_4; pfam01565 395492006796 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 395492006797 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 395492006798 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 395492006799 Cysteine-rich domain; Region: CCG; pfam02754 395492006800 Cysteine-rich domain; Region: CCG; pfam02754 395492006801 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 395492006802 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 395492006803 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 395492006804 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 395492006805 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 395492006806 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 395492006807 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 395492006808 motif II; other site 395492006809 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 395492006810 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 395492006811 active site 395492006812 catalytic tetrad [active] 395492006813 Domain of unknown function (DUF305); Region: DUF305; cl15795 395492006814 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 395492006815 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 395492006816 dimer interface [polypeptide binding]; other site 395492006817 motif 1; other site 395492006818 motif 2; other site 395492006819 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 395492006820 active site 395492006821 motif 3; other site 395492006822 HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: HisRS_anticodon; cd00859 395492006823 anticodon binding site; other site 395492006824 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12295 395492006825 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 395492006826 motif 1; other site 395492006827 dimer interface [polypeptide binding]; other site 395492006828 active site 395492006829 motif 2; other site 395492006830 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 395492006831 motif 3; other site 395492006832 ATP phosphoribosyltransferase; Region: HisG; cl15266 395492006833 DoxX; Region: DoxX; cl00976 395492006834 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 395492006835 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 395492006836 C-terminal domain interface [polypeptide binding]; other site 395492006837 GSH binding site (G-site) [chemical binding]; other site 395492006838 dimer interface [polypeptide binding]; other site 395492006839 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 395492006840 dimer interface [polypeptide binding]; other site 395492006841 N-terminal domain interface [polypeptide binding]; other site 395492006842 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 395492006843 GroEL_like type I chaperonin. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings, each composed of 7-9 subunits. The symmetry of type I is seven-fold and they are found...; Region: GroEL; cd03344 395492006844 ring oligomerisation interface [polypeptide binding]; other site 395492006845 ATP/Mg binding site [chemical binding]; other site 395492006846 stacking interactions; other site 395492006847 hinge regions; other site 395492006848 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 395492006849 oligomerisation interface [polypeptide binding]; other site 395492006850 mobile loop; other site 395492006851 roof hairpin; other site 395492006852 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 395492006853 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 395492006854 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 395492006855 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 395492006856 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 395492006857 active site 395492006858 Riboflavin kinase; Region: Flavokinase; cl03312 395492006859 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 395492006860 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 395492006861 active site 395492006862 HIGH motif; other site 395492006863 nucleotide binding site [chemical binding]; other site 395492006864 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 395492006865 active site 395492006866 KMSKS motif; other site 395492006867 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 395492006868 tRNA binding surface [nucleotide binding]; other site 395492006869 anticodon binding site; other site 395492006870 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 395492006871 nucleoside/Zn binding site; other site 395492006872 dimer interface [polypeptide binding]; other site 395492006873 catalytic motif [active] 395492006874 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 395492006875 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 395492006876 RNA binding surface [nucleotide binding]; other site 395492006877 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 395492006878 active site 395492006879 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 395492006880 S-adenosylmethionine binding site [chemical binding]; other site 395492006881 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 395492006882 nucleophile elbow; other site 395492006883 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395492006884 Helix-turn-helix domains; Region: HTH; cl00088 395492006885 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 395492006886 FMN binding site [chemical binding]; other site 395492006887 active site 395492006888 substrate binding site [chemical binding]; other site 395492006889 catalytic residue [active] 395492006890 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 395492006891 NADH(P)-binding; Region: NAD_binding_10; pfam13460 395492006892 NAD binding site [chemical binding]; other site 395492006893 substrate binding site [chemical binding]; other site 395492006894 putative active site [active] 395492006895 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 395492006896 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 395492006897 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492006898 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 395492006899 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 395492006900 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in cysteine...; Region: CysQ; cd01638 395492006901 active site 395492006902 Domain of unknown function (DUF4170); Region: DUF4170; pfam13773 395492006903 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 395492006904 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 395492006905 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 395492006906 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 395492006907 motif II; other site 395492006908 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 395492006909 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 395492006910 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395492006911 DNA-binding site [nucleotide binding]; DNA binding site 395492006912 Transcriptional regulators [Transcription]; Region: GntR; COG1802 395492006913 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395492006914 DNA-binding site [nucleotide binding]; DNA binding site 395492006915 FCD domain; Region: FCD; cl11656 395492006916 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 395492006917 TM-ABC transporter signature motif; other site 395492006918 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 395492006919 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492006920 Walker A/P-loop; other site 395492006921 ATP binding site [chemical binding]; other site 395492006922 Q-loop/lid; other site 395492006923 ABC transporter signature motif; other site 395492006924 Walker B; other site 395492006925 D-loop; other site 395492006926 H-loop/switch region; other site 395492006927 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 395492006928 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 395492006929 ligand binding site [chemical binding]; other site 395492006930 Uncharacterized protein conserved in bacteria (DUF2093); Region: DUF2093; cl11535 395492006931 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 395492006932 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 395492006933 ATP binding site [chemical binding]; other site 395492006934 Mg2+ binding site [ion binding]; other site 395492006935 G-X-G motif; other site 395492006936 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 395492006937 ATP binding site [chemical binding]; other site 395492006938 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 395492006939 PAS fold; Region: PAS_7; pfam12860 395492006940 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 395492006941 PAS fold; Region: PAS_4; pfam08448 395492006942 Response regulator receiver domain; Region: Response_reg; pfam00072 395492006943 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492006944 active site 395492006945 phosphorylation site [posttranslational modification] 395492006946 intermolecular recognition site; other site 395492006947 dimerization interface [polypeptide binding]; other site 395492006948 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395492006949 metal binding site [ion binding]; metal-binding site 395492006950 active site 395492006951 I-site; other site 395492006952 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 395492006953 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 395492006954 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 395492006955 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 395492006956 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 395492006957 active site 395492006958 intersubunit interface [polypeptide binding]; other site 395492006959 catalytic residue [active] 395492006960 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 395492006961 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 395492006962 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 395492006963 classical (c) SDRs; Region: SDR_c; cd05233 395492006964 NAD(P) binding site [chemical binding]; other site 395492006965 active site 395492006966 Transcriptional regulator [Transcription]; Region: IclR; COG1414 395492006967 Helix-turn-helix domains; Region: HTH; cl00088 395492006968 Bacterial transcriptional regulator; Region: IclR; pfam01614 395492006969 Autoinducer binding domain; Region: Autoind_bind; pfam03472 395492006970 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 395492006971 dimerization interface [polypeptide binding]; other site 395492006972 DNA binding residues [nucleotide binding] 395492006973 Domain of unknown function DUF59; Region: DUF59; cl00941 395492006974 MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions...; Region: MRP-like; cd02037 395492006975 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 395492006976 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 395492006977 K+ potassium transporter; Region: K_trans; cl15781 395492006978 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 395492006979 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 395492006980 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 395492006981 Cell wall hydrolyses involved in spore germination [Cell envelope biogenesis, outer membrane]; Region: SleB; COG3773 395492006982 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 395492006983 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 395492006984 ATP synthase A chain; Region: ATP-synt_A; cl00413 395492006985 ATP synthase subunit C; Region: ATP-synt_C; cl00466 395492006986 Plant ATP synthase F0; Region: YMF19; cl07975 395492006987 Plant ATP synthase F0; Region: YMF19; cl07975 395492006988 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 395492006989 RNA/DNA hybrid binding site [nucleotide binding]; other site 395492006990 active site 395492006991 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 395492006992 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 395492006993 FeS/SAM binding site; other site 395492006994 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 395492006995 active site 395492006996 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 395492006997 MPT binding site; other site 395492006998 trimer interface [polypeptide binding]; other site 395492006999 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 395492007000 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 395492007001 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 395492007002 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 395492007003 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 395492007004 binding surface 395492007005 TPR motif; other site 395492007006 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 395492007007 binding surface 395492007008 TPR motif; other site 395492007009 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 395492007010 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 395492007011 substrate binding pocket [chemical binding]; other site 395492007012 chain length determination region; other site 395492007013 substrate-Mg2+ binding site; other site 395492007014 catalytic residues [active] 395492007015 aspartate-rich region 1; other site 395492007016 active site lid residues [active] 395492007017 aspartate-rich region 2; other site 395492007018 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 395492007019 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 395492007020 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 395492007021 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 395492007022 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 395492007023 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 395492007024 tandem repeat interface [polypeptide binding]; other site 395492007025 oligomer interface [polypeptide binding]; other site 395492007026 active site residues [active] 395492007027 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 395492007028 dimer interface [polypeptide binding]; other site 395492007029 motif 1; other site 395492007030 active site 395492007031 motif 2; other site 395492007032 motif 3; other site 395492007033 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 395492007034 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 395492007035 LemA family; Region: LemA; cl00742 395492007036 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 395492007037 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 395492007038 hinge; other site 395492007039 active site 395492007040 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 395492007041 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 395492007042 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 395492007043 ATP-grasp domain; Region: ATP-grasp_4; cl03087 395492007044 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 395492007045 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 395492007046 Cache domain; Region: Cache_2; cl07034 395492007047 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 395492007048 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395492007049 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395492007050 dimer interface [polypeptide binding]; other site 395492007051 putative CheW interface [polypeptide binding]; other site 395492007052 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 395492007053 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 395492007054 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 395492007055 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 395492007056 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 395492007057 RNA binding site [nucleotide binding]; other site 395492007058 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 395492007059 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 395492007060 S-adenosylmethionine binding site [chemical binding]; other site 395492007061 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 395492007062 catalytic core [active] 395492007063 MltA-interacting protein MipA; Region: MipA; cl01504 395492007064 UbiA prenyltransferase family; Region: UbiA; cl00337 395492007065 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 395492007066 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 395492007067 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 395492007068 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 395492007069 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 395492007070 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 395492007071 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 395492007072 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 395492007073 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 395492007074 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 395492007075 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 395492007076 FAD binding domain; Region: FAD_binding_4; pfam01565 395492007077 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 395492007078 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 395492007079 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 395492007080 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 395492007081 [2Fe-2S] cluster binding site [ion binding]; other site 395492007082 C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_GbcA-like; cd08884 395492007083 putative alpha subunit interface [polypeptide binding]; other site 395492007084 putative active site [active] 395492007085 putative substrate binding site [chemical binding]; other site 395492007086 Fe binding site [ion binding]; other site 395492007087 BA14K-like protein; Region: BA14K; pfam07886 395492007088 Protein of unknown function (DUF982); Region: DUF982; pfam06169 395492007089 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 395492007090 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 395492007091 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 395492007092 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 395492007093 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 395492007094 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 395492007095 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 395492007096 active site 395492007097 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 395492007098 enoyl-CoA hydratase; Provisional; Region: PRK06688 395492007099 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 395492007100 substrate binding site [chemical binding]; other site 395492007101 oxyanion hole (OAH) forming residues; other site 395492007102 trimer interface [polypeptide binding]; other site 395492007103 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 395492007104 short chain dehydrogenase; Provisional; Region: PRK06179 395492007105 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 395492007106 NADP binding site [chemical binding]; other site 395492007107 active site 395492007108 steroid binding site; other site 395492007109 Helix-turn-helix domains; Region: HTH; cl00088 395492007110 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 395492007111 TRAM domain; Region: TRAM; cl01282 395492007112 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 395492007113 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 395492007114 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 395492007115 RNA binding surface [nucleotide binding]; other site 395492007116 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 395492007117 S-adenosylmethionine binding site [chemical binding]; other site 395492007118 Domain of unknown function (DUF4424); Region: DUF4424; pfam14415 395492007119 CHASE3 domain; Region: CHASE3; cl05000 395492007120 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 395492007121 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 395492007122 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395492007123 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395492007124 dimer interface [polypeptide binding]; other site 395492007125 putative CheW interface [polypeptide binding]; other site 395492007126 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 395492007127 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 395492007128 TPP-binding site; other site 395492007129 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 395492007130 PYR/PP interface [polypeptide binding]; other site 395492007131 dimer interface [polypeptide binding]; other site 395492007132 TPP binding site [chemical binding]; other site 395492007133 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 395492007134 Putative catalytic domain, repeat 1, of uncharacterized hypothetical proteins similar to Nuc, an endonuclease from Salmonella typhimurium; Region: PLDc_Nuc_like_unchar1_1; cd09172 395492007135 putative active site [active] 395492007136 catalytic site [active] 395492007137 Putative catalytic domain, repeat 2, of uncharacterized hypothetical proteins similar to Nuc, an endonuclease from Salmonella typhimurium; Region: PLDc_Nuc_like_unchar1_2; cd09173 395492007138 putative active site [active] 395492007139 catalytic site [active] 395492007140 Pirin-related protein [General function prediction only]; Region: COG1741 395492007141 Cupin domain; Region: Cupin_2; cl09118 395492007142 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 395492007143 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492007144 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 395492007145 classical (c) SDRs; Region: SDR_c; cd05233 395492007146 NAD(P) binding site [chemical binding]; other site 395492007147 active site 395492007148 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 395492007149 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 395492007150 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 395492007151 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 395492007152 active site 395492007153 Transcriptional regulators [Transcription]; Region: GntR; COG1802 395492007154 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395492007155 DNA-binding site [nucleotide binding]; DNA binding site 395492007156 FCD domain; Region: FCD; cl11656 395492007157 Malonyl-CoA decarboxylase (MCD); Region: MCD; pfam05292 395492007158 malonyl-CoA synthase; Validated; Region: PRK07514 395492007159 AMP-binding enzyme; Region: AMP-binding; cl15778 395492007160 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 395492007161 Dicarboxylate carrier protein MatC N-terminus; Region: MatC_N; pfam07158 395492007162 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 395492007163 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 395492007164 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 395492007165 DNA binding residues [nucleotide binding] 395492007166 dimerization interface [polypeptide binding]; other site 395492007167 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 395492007168 Cupin domain; Region: Cupin_2; cl09118 395492007169 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 395492007170 Helix-turn-helix domains; Region: HTH; cl00088 395492007171 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492007172 dimerization interface [polypeptide binding]; other site 395492007173 OpgC protein; Region: OpgC_C; cl00792 395492007174 Acyltransferase family; Region: Acyl_transf_3; pfam01757 395492007175 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 395492007176 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 395492007177 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 395492007178 Walker A/P-loop; other site 395492007179 ATP binding site [chemical binding]; other site 395492007180 Q-loop/lid; other site 395492007181 ABC transporter signature motif; other site 395492007182 Walker B; other site 395492007183 D-loop; other site 395492007184 H-loop/switch region; other site 395492007185 Protein of unknown function (DUF1006); Region: DUF1006; cl15826 395492007186 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09314 395492007187 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 395492007188 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cl00522 395492007189 dimerization interface [polypeptide binding]; other site 395492007190 active site 395492007191 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 395492007192 Tetramer interface [polypeptide binding]; other site 395492007193 active site 395492007194 FMN-binding site [chemical binding]; other site 395492007195 CHASE domain; Region: CHASE; cl01369 395492007196 putative diguanylate cyclase; Provisional; Region: PRK09776 395492007197 putative diguanylate cyclase; Provisional; Region: PRK09776 395492007198 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395492007199 metal binding site [ion binding]; metal-binding site 395492007200 active site 395492007201 I-site; other site 395492007202 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 395492007203 Protein of unknown function (DUF1344); Region: DUF1344; pfam07076 395492007204 Domain of unknown function (DUF1902); Region: DUF1902; pfam08972 395492007205 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 395492007206 catalytic core [active] 395492007207 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 395492007208 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 395492007209 NAD binding site [chemical binding]; other site 395492007210 homotetramer interface [polypeptide binding]; other site 395492007211 homodimer interface [polypeptide binding]; other site 395492007212 substrate binding site [chemical binding]; other site 395492007213 active site 395492007214 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 395492007215 HSP70 interaction site [polypeptide binding]; other site 395492007216 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 395492007217 dimer interface [polypeptide binding]; other site 395492007218 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 395492007219 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 395492007220 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 395492007221 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 395492007222 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 395492007223 Putative catalytic NodB homology domain of Mesorhizobium loti Mlr8448 protein and its bacterial homologs; Region: CE4_Mlr8448_like_5s; cd10968 395492007224 putative active site [active] 395492007225 putative metal binding site [ion binding]; other site 395492007226 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 395492007227 Sporulation related domain; Region: SPOR; cl10051 395492007228 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 395492007229 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 395492007230 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395492007231 Coenzyme A binding pocket [chemical binding]; other site 395492007232 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 395492007233 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 395492007234 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 395492007235 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00051 395492007236 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 395492007237 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 395492007238 cytochrome c oxidase subunit I; Validated; Region: COX1; MTH00007 395492007239 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 395492007240 Subunit I/III interface [polypeptide binding]; other site 395492007241 D-pathway; other site 395492007242 Subunit I/VIIc interface [polypeptide binding]; other site 395492007243 Subunit I/IV interface [polypeptide binding]; other site 395492007244 Subunit I/II interface [polypeptide binding]; other site 395492007245 Low-spin heme (heme a) binding site [chemical binding]; other site 395492007246 Subunit I/VIIa interface [polypeptide binding]; other site 395492007247 Subunit I/VIa interface [polypeptide binding]; other site 395492007248 Dimer interface; other site 395492007249 Putative water exit pathway; other site 395492007250 Binuclear center (heme a3/CuB) [ion binding]; other site 395492007251 K-pathway; other site 395492007252 Subunit I/Vb interface [polypeptide binding]; other site 395492007253 Putative proton exit pathway; other site 395492007254 Subunit I/VIb interface; other site 395492007255 Subunit I/VIc interface [polypeptide binding]; other site 395492007256 Electron transfer pathway; other site 395492007257 Subunit I/VIIIb interface [polypeptide binding]; other site 395492007258 Subunit I/VIIb interface [polypeptide binding]; other site 395492007259 UbiA prenyltransferase family; Region: UbiA; cl00337 395492007260 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; cl01240 395492007261 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 395492007262 Subunit III/VIIa interface [polypeptide binding]; other site 395492007263 Phospholipid binding site [chemical binding]; other site 395492007264 Subunit I/III interface [polypeptide binding]; other site 395492007265 Subunit III/VIb interface [polypeptide binding]; other site 395492007266 Subunit III/VIa interface; other site 395492007267 Subunit III/Vb interface [polypeptide binding]; other site 395492007268 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492007269 P-loop motif; other site 395492007270 ATP binding site [chemical binding]; other site 395492007271 Chloramphenicol (Cm) binding site [chemical binding]; other site 395492007272 catalytic residue [active] 395492007273 Protein of unknown function (DUF983); Region: DUF983; cl02211 395492007274 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 395492007275 LytB protein; Region: LYTB; cl00507 395492007276 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 395492007277 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 395492007278 Phosphotransferase enzyme family; Region: APH; pfam01636 395492007279 putative active site [active] 395492007280 putative substrate binding site [chemical binding]; other site 395492007281 ATP binding site [chemical binding]; other site 395492007282 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 395492007283 RNA/DNA hybrid binding site [nucleotide binding]; other site 395492007284 active site 395492007285 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 395492007286 nudix motif; other site 395492007287 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4307 395492007288 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; pfam10005 395492007289 CsbD-like; Region: CsbD; cl15799 395492007290 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 395492007291 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 395492007292 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 395492007293 catalytic triad [active] 395492007294 dimer interface [polypeptide binding]; other site 395492007295 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 395492007296 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 395492007297 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 395492007298 ABC-ATPase subunit interface; other site 395492007299 dimer interface [polypeptide binding]; other site 395492007300 putative PBP binding regions; other site 395492007301 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 395492007302 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 395492007303 metal binding site [ion binding]; metal-binding site 395492007304 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 395492007305 Cache domain; Region: Cache_1; pfam02743 395492007306 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 395492007307 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395492007308 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395492007309 dimer interface [polypeptide binding]; other site 395492007310 putative CheW interface [polypeptide binding]; other site 395492007311 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 395492007312 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 395492007313 metal binding site [ion binding]; metal-binding site 395492007314 putative dimer interface [polypeptide binding]; other site 395492007315 allantoate amidohydrolase; Reviewed; Region: PRK12890 395492007316 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 395492007317 active site 395492007318 metal binding site [ion binding]; metal-binding site 395492007319 dimer interface [polypeptide binding]; other site 395492007320 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 395492007321 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 395492007322 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395492007323 catalytic residue [active] 395492007324 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 395492007325 Helix-turn-helix domains; Region: HTH; cl00088 395492007326 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 395492007327 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 395492007328 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395492007329 putative active site [active] 395492007330 heme pocket [chemical binding]; other site 395492007331 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395492007332 metal binding site [ion binding]; metal-binding site 395492007333 active site 395492007334 I-site; other site 395492007335 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 395492007336 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395492007337 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 395492007338 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 395492007339 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 395492007340 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 395492007341 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 395492007342 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants, cyanobacteria; Region: Thr-synth_2; cd01560 395492007343 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492007344 catalytic residue [active] 395492007345 oxaloacetate decarboxylase alpha subunit; Region: oadA; TIGR01108 395492007346 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 395492007347 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 395492007348 Predicted transcriptional regulator [Transcription]; Region: COG2944 395492007349 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 395492007350 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 395492007351 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395492007352 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395492007353 dimer interface [polypeptide binding]; other site 395492007354 putative CheW interface [polypeptide binding]; other site 395492007355 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 395492007356 putative DNA binding site [nucleotide binding]; other site 395492007357 dimerization interface [polypeptide binding]; other site 395492007358 NIPSNAP; Region: NIPSNAP; pfam07978 395492007359 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 395492007360 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 395492007361 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 395492007362 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 395492007363 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 395492007364 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 395492007365 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 395492007366 minor groove reading motif; other site 395492007367 helix-hairpin-helix signature motif; other site 395492007368 substrate binding pocket [chemical binding]; other site 395492007369 active site 395492007370 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 395492007371 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 395492007372 DNA binding and oxoG recognition site [nucleotide binding] 395492007373 Protein of unknown function (DUF721); Region: DUF721; cl02324 395492007374 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 395492007375 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 395492007376 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 395492007377 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 395492007378 Walker A/P-loop; other site 395492007379 ATP binding site [chemical binding]; other site 395492007380 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 395492007381 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 395492007382 ABC transporter signature motif; other site 395492007383 Walker B; other site 395492007384 D-loop; other site 395492007385 H-loop/switch region; other site 395492007386 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 395492007387 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 395492007388 Phosphotransferase enzyme family; Region: APH; pfam01636 395492007389 active site 395492007390 ATP binding site [chemical binding]; other site 395492007391 pyruvate phosphate dikinase; Provisional; Region: PRK09279 395492007392 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 395492007393 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 395492007394 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 395492007395 Protein of unknown function (DUF1499); Region: DUF1499; cl01841 395492007396 Transposase; Region: DEDD_Tnp_IS110; pfam01548 395492007397 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 395492007398 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 395492007399 Domain of unknown function (DUF4166); Region: DUF4166; pfam13761 395492007400 Protein of unknown function, DUF393; Region: DUF393; cl01136 395492007401 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 395492007402 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 395492007403 Helix-turn-helix domains; Region: HTH; cl00088 395492007404 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 395492007405 HTH-like domain; Region: HTH_21; pfam13276 395492007406 Integrase core domain; Region: rve; cl01316 395492007407 Integrase core domain; Region: rve_3; cl15866 395492007408 daunorubicin C-13 ketoreductase (KR), classical (c)-like SDRs; Region: DR_C-13_KR_SDR_c_like; cd08951 395492007409 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 395492007410 putative NAD(P) binding site [chemical binding]; other site 395492007411 active site 395492007412 WHG domain; Region: WHG; pfam13305 395492007413 PspA/IM30 family; Region: PspA_IM30; pfam04012 395492007414 yiaA/B two helix domain; Region: YiaAB; cl01759 395492007415 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 395492007416 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395492007417 putative substrate translocation pore; other site 395492007418 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 395492007419 putative acyl-acceptor binding pocket; other site 395492007420 AMP-binding enzyme; Region: AMP-binding; cl15778 395492007421 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 395492007422 classical (c) SDRs; Region: SDR_c; cd05233 395492007423 NAD(P) binding site [chemical binding]; other site 395492007424 active site 395492007425 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395492007426 Helix-turn-helix domains; Region: HTH; cl00088 395492007427 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395492007428 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395492007429 putative substrate translocation pore; other site 395492007430 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 395492007431 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492007432 Protein of unknown function (DUF982); Region: DUF982; pfam06169 395492007433 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 395492007434 Catalytic site [active] 395492007435 GcrA cell cycle regulator; Region: GcrA; cl11564 395492007436 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 395492007437 DNA binding residues [nucleotide binding] 395492007438 dimerization interface [polypeptide binding]; other site 395492007439 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 395492007440 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 395492007441 nucleoside/Zn binding site; other site 395492007442 dimer interface [polypeptide binding]; other site 395492007443 catalytic motif [active] 395492007444 Protein of unknown function (DUF805); Region: DUF805; cl01224 395492007445 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 395492007446 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 395492007447 dimer interface [polypeptide binding]; other site 395492007448 phosphorylation site [posttranslational modification] 395492007449 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 395492007450 ATP binding site [chemical binding]; other site 395492007451 Mg2+ binding site [ion binding]; other site 395492007452 G-X-G motif; other site 395492007453 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 395492007454 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492007455 active site 395492007456 phosphorylation site [posttranslational modification] 395492007457 intermolecular recognition site; other site 395492007458 dimerization interface [polypeptide binding]; other site 395492007459 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 395492007460 DNA binding site [nucleotide binding] 395492007461 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 395492007462 DNA binding site [nucleotide binding] 395492007463 TolB amino-terminal domain; Region: TolB_N; cl00639 395492007464 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 395492007465 TPR motif; other site 395492007466 binding surface 395492007467 TPR repeat; Region: TPR_11; pfam13414 395492007468 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 395492007469 binding surface 395492007470 TPR motif; other site 395492007471 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 395492007472 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 395492007473 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 395492007474 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 395492007475 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 395492007476 Walker A/P-loop; other site 395492007477 ATP binding site [chemical binding]; other site 395492007478 Q-loop/lid; other site 395492007479 ABC transporter signature motif; other site 395492007480 Walker B; other site 395492007481 D-loop; other site 395492007482 H-loop/switch region; other site 395492007483 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 395492007484 DinB superfamily; Region: DinB_2; pfam12867 395492007485 Cache domain; Region: Cache_1; pfam02743 395492007486 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 395492007487 cyclase homology domain; Region: CHD; cd07302 395492007488 nucleotidyl binding site; other site 395492007489 metal binding site [ion binding]; metal-binding site 395492007490 dimer interface [polypeptide binding]; other site 395492007491 tetracycline repressor protein TetR; Provisional; Region: PRK13756 395492007492 Helix-turn-helix domains; Region: HTH; cl00088 395492007493 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 395492007494 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 395492007495 homotrimer interaction site [polypeptide binding]; other site 395492007496 putative active site [active] 395492007497 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 395492007498 dimerization interface [polypeptide binding]; other site 395492007499 putative DNA binding site [nucleotide binding]; other site 395492007500 putative Zn2+ binding site [ion binding]; other site 395492007501 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 395492007502 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492007503 NAD(P) binding site [chemical binding]; other site 395492007504 active site 395492007505 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 395492007506 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 395492007507 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 395492007508 Platelet-activating factor acetylhydrolase, isoform II; Region: PAF-AH_p_II; pfam03403 395492007509 large terminase protein; Provisional; Region: 17; PHA02533 395492007510 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 395492007511 active site 395492007512 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 395492007513 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 395492007514 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 395492007515 OpgC protein; Region: OpgC_C; cl00792 395492007516 Acyltransferase family; Region: Acyl_transf_3; pfam01757 395492007517 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 395492007518 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 395492007519 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 395492007520 OpgC protein; Region: OpgC_C; cl00792 395492007521 Acyltransferase family; Region: Acyl_transf_3; pfam01757 395492007522 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 395492007523 catalytic residue [active] 395492007524 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 395492007525 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 395492007526 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 395492007527 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 395492007528 protein binding site [polypeptide binding]; other site 395492007529 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 395492007530 protein binding site [polypeptide binding]; other site 395492007531 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395492007532 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395492007533 DNA binding site [nucleotide binding] 395492007534 domain linker motif; other site 395492007535 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 395492007536 putative ligand binding site [chemical binding]; other site 395492007537 putative dimerization interface [polypeptide binding]; other site 395492007538 Helix-turn-helix domains; Region: HTH; cl00088 395492007539 LysR family transcriptional regulator; Provisional; Region: PRK14997 395492007540 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 395492007541 putative effector binding pocket; other site 395492007542 dimerization interface [polypeptide binding]; other site 395492007543 NmrA (a transcriptional regulator) and HSCARG (an NADPH sensor) like proteins, atypical (a) SDRs; Region: NmrA_like_SDR_a; cd05251 395492007544 NmrA-like family; Region: NmrA; pfam05368 395492007545 NADP binding site [chemical binding]; other site 395492007546 active site 395492007547 regulatory binding site [polypeptide binding]; other site 395492007548 Transglycosylase; Region: Transgly; cl07896 395492007549 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 395492007550 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 395492007551 BA14K-like protein; Region: BA14K; pfam07886 395492007552 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 395492007553 putative catalytic residues [active] 395492007554 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 395492007555 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 395492007556 CysD dimerization site [polypeptide binding]; other site 395492007557 G1 box; other site 395492007558 putative GEF interaction site [polypeptide binding]; other site 395492007559 GTP/Mg2+ binding site [chemical binding]; other site 395492007560 Switch I region; other site 395492007561 G2 box; other site 395492007562 G3 box; other site 395492007563 Switch II region; other site 395492007564 G4 box; other site 395492007565 G5 box; other site 395492007566 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 395492007567 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 395492007568 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 395492007569 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 395492007570 Active Sites [active] 395492007571 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 395492007572 Active Sites [active] 395492007573 Predicted transcriptional regulator [Transcription]; Region: COG1959 395492007574 Helix-turn-helix domains; Region: HTH; cl00088 395492007575 ClC chloride channel family. These protein sequences, closely related to the ClC Eric family, are putative halogen ion (Cl-, Br- and I-) transport proteins found in eubacteria. They belong to the ClC superfamily of chloride ion channels, which share a...; Region: EriC_like; cd01034 395492007576 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 395492007577 putative ion selectivity filter; other site 395492007578 putative pore gating glutamate residue; other site 395492007579 putative H+/Cl- coupling transport residue; other site 395492007580 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; cl01912 395492007581 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 395492007582 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 395492007583 choline dehydrogenase; Validated; Region: PRK02106 395492007584 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492007585 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 395492007586 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395492007587 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 395492007588 NAD(P) binding site [chemical binding]; other site 395492007589 catalytic residues [active] 395492007590 transcriptional regulator BetI; Validated; Region: PRK00767 395492007591 Helix-turn-helix domains; Region: HTH; cl00088 395492007592 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 395492007593 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 395492007594 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 395492007595 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 395492007596 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 395492007597 NAD(P) binding site [chemical binding]; other site 395492007598 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395492007599 sugar efflux transporter B; Provisional; Region: PRK15011 395492007600 L-asparaginase II; Region: Asparaginase_II; cl01842 395492007601 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 395492007602 Helix-turn-helix domains; Region: HTH; cl00088 395492007603 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 395492007604 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cl00198 395492007605 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 395492007606 glutathionine S-transferase; Provisional; Region: PRK10542 395492007607 C-terminal domain interface [polypeptide binding]; other site 395492007608 GSH binding site (G-site) [chemical binding]; other site 395492007609 dimer interface [polypeptide binding]; other site 395492007610 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 395492007611 dimer interface [polypeptide binding]; other site 395492007612 substrate binding pocket (H-site) [chemical binding]; other site 395492007613 N-terminal domain interface [polypeptide binding]; other site 395492007614 Protein of unknown function (DUF419); Region: DUF419; cl15265 395492007615 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 395492007616 putative C-terminal domain interface [polypeptide binding]; other site 395492007617 putative GSH binding site (G-site) [chemical binding]; other site 395492007618 putative dimer interface [polypeptide binding]; other site 395492007619 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 395492007620 dimer interface [polypeptide binding]; other site 395492007621 N-terminal domain interface [polypeptide binding]; other site 395492007622 putative substrate binding pocket (H-site) [chemical binding]; other site 395492007623 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 395492007624 Predicted acetyltransferase [General function prediction only]; Region: COG3981 395492007625 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395492007626 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 395492007627 Helix-turn-helix domains; Region: HTH; cl00088 395492007628 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 395492007629 dimerization interface [polypeptide binding]; other site 395492007630 substrate binding pocket [chemical binding]; other site 395492007631 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 395492007632 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 395492007633 putative C-terminal domain interface [polypeptide binding]; other site 395492007634 putative GSH binding site (G-site) [chemical binding]; other site 395492007635 putative dimer interface [polypeptide binding]; other site 395492007636 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 395492007637 dimer interface [polypeptide binding]; other site 395492007638 N-terminal domain interface [polypeptide binding]; other site 395492007639 putative substrate binding pocket (H-site) [chemical binding]; other site 395492007640 twin-arg-translocated uncharacterized repeat protein; Region: RR_plus_rpt_1; TIGR03808 395492007641 PAS fold; Region: PAS_4; pfam08448 395492007642 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 395492007643 GAF domain; Region: GAF_2; pfam13185 395492007644 GAF domain; Region: GAF; cl15785 395492007645 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395492007646 metal binding site [ion binding]; metal-binding site 395492007647 active site 395492007648 I-site; other site 395492007649 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 395492007650 Autoinducer binding domain; Region: Autoind_bind; pfam03472 395492007651 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 395492007652 DNA binding residues [nucleotide binding] 395492007653 dimerization interface [polypeptide binding]; other site 395492007654 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 395492007655 PAS fold; Region: PAS_4; pfam08448 395492007656 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395492007657 putative active site [active] 395492007658 heme pocket [chemical binding]; other site 395492007659 PAS fold; Region: PAS_7; pfam12860 395492007660 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395492007661 metal binding site [ion binding]; metal-binding site 395492007662 active site 395492007663 I-site; other site 395492007664 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial homologs of mammalian glycerophosphodiester phosphodiesterase GDE4; Region: GDPD_GDE4_like_1; cd08613 395492007665 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 395492007666 putative active site [active] 395492007667 catalytic site [active] 395492007668 putative metal binding site [ion binding]; other site 395492007669 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395492007670 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395492007671 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 395492007672 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 395492007673 ATP-dependent DNA ligase; Validated; Region: PRK09247 395492007674 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 395492007675 active site 395492007676 DNA binding site [nucleotide binding] 395492007677 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of archaeal and bacterial ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_Arch_LigB; cd07972 395492007678 DNA binding site [nucleotide binding] 395492007679 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 395492007680 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395492007681 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 395492007682 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 395492007683 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 395492007684 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 395492007685 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 395492007686 DNA-binding site [nucleotide binding]; DNA binding site 395492007687 RNA-binding motif; other site 395492007688 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 395492007689 Transcriptional regulators [Transcription]; Region: MarR; COG1846 395492007690 Helix-turn-helix domains; Region: HTH; cl00088 395492007691 OsmC-like protein; Region: OsmC; cl00767 395492007692 Helix-turn-helix domains; Region: HTH; cl00088 395492007693 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 395492007694 Protein of unknown function (DUF1579); Region: DUF1579; pfam07617 395492007695 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395492007696 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 395492007697 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395492007698 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 395492007699 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 395492007700 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 395492007701 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 395492007702 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 395492007703 Transposase; Region: DEDD_Tnp_IS110; pfam01548 395492007704 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 395492007705 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 395492007706 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492007707 Walker A/P-loop; other site 395492007708 ATP binding site [chemical binding]; other site 395492007709 Q-loop/lid; other site 395492007710 ABC transporter signature motif; other site 395492007711 Walker B; other site 395492007712 D-loop; other site 395492007713 H-loop/switch region; other site 395492007714 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 395492007715 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 395492007716 glucose-6-phosphate 1-dehydrogenase; Provisional; Region: PRK12853 395492007717 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 395492007718 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 395492007719 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 395492007720 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 395492007721 S-adenosylmethionine binding site [chemical binding]; other site 395492007722 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 395492007723 Domain of unknown function DUF21; Region: DUF21; pfam01595 395492007724 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 395492007725 Transporter associated domain; Region: CorC_HlyC; cl08393 395492007726 Cupin domain; Region: Cupin_2; cl09118 395492007727 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 395492007728 Metal-binding active site; metal-binding site 395492007729 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 395492007730 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH6; cd08260 395492007731 putative NAD(P) binding site [chemical binding]; other site 395492007732 catalytic Zn binding site [ion binding]; other site 395492007733 structural Zn binding site [ion binding]; other site 395492007734 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 395492007735 homodimer interface [polypeptide binding]; other site 395492007736 substrate-cofactor binding pocket; other site 395492007737 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492007738 catalytic residue [active] 395492007739 transcriptional regulator; Provisional; Region: PRK10632 395492007740 Helix-turn-helix domains; Region: HTH; cl00088 395492007741 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 395492007742 putative effector binding pocket; other site 395492007743 dimerization interface [polypeptide binding]; other site 395492007744 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 395492007745 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395492007746 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395492007747 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 395492007748 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395492007749 putative substrate translocation pore; other site 395492007750 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395492007751 cyclase homology domain; Region: CHD; cd07302 395492007752 nucleotidyl binding site; other site 395492007753 metal binding site [ion binding]; metal-binding site 395492007754 dimer interface [polypeptide binding]; other site 395492007755 NAD+ synthetase; Region: nadE; TIGR00552 395492007756 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 395492007757 homodimer interface [polypeptide binding]; other site 395492007758 NAD binding pocket [chemical binding]; other site 395492007759 ATP binding pocket [chemical binding]; other site 395492007760 Mg binding site [ion binding]; other site 395492007761 active-site loop [active] 395492007762 glutathionine S-transferase; Provisional; Region: PRK10542 395492007763 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 395492007764 C-terminal domain interface [polypeptide binding]; other site 395492007765 GSH binding site (G-site) [chemical binding]; other site 395492007766 dimer interface [polypeptide binding]; other site 395492007767 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 395492007768 dimer interface [polypeptide binding]; other site 395492007769 N-terminal domain interface [polypeptide binding]; other site 395492007770 substrate binding pocket (H-site) [chemical binding]; other site 395492007771 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395492007772 Helix-turn-helix domains; Region: HTH; cl00088 395492007773 drug efflux system protein MdtG; Provisional; Region: PRK09874 395492007774 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395492007775 putative substrate translocation pore; other site 395492007776 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 395492007777 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 395492007778 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 395492007779 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 395492007780 S-adenosylmethionine binding site [chemical binding]; other site 395492007781 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 395492007782 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 395492007783 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 395492007784 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 395492007785 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 395492007786 motif II; other site 395492007787 Homo sapiens Nbla03831 and related proteins, metallophosphatase domain; Region: MPP_Nbla03831; cd07396 395492007788 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 395492007789 active site 395492007790 metal binding site [ion binding]; metal-binding site 395492007791 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 395492007792 Helix-turn-helix domains; Region: HTH; cl00088 395492007793 WYL domain; Region: WYL; cl14852 395492007794 LysE type translocator; Region: LysE; cl00565 395492007795 Cytochrome C'; Region: Cytochrom_C_2; cl01610 395492007796 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 395492007797 Cytochrome c; Region: Cytochrom_C; cl11414 395492007798 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 395492007799 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395492007800 Coenzyme A binding pocket [chemical binding]; other site 395492007801 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 395492007802 putative metal binding site [ion binding]; other site 395492007803 putative homodimer interface [polypeptide binding]; other site 395492007804 putative homotetramer interface [polypeptide binding]; other site 395492007805 putative homodimer-homodimer interface [polypeptide binding]; other site 395492007806 putative allosteric switch controlling residues; other site 395492007807 Cation efflux family; Region: Cation_efflux; cl00316 395492007808 beta-lactamase TEM; Provisional; Region: PRK15442 395492007809 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 395492007810 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 395492007811 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 395492007812 Trp docking motif [polypeptide binding]; other site 395492007813 putative active site [active] 395492007814 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 395492007815 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; pfam02696 395492007816 putative transporter; Provisional; Region: PRK10504 395492007817 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395492007818 putative substrate translocation pore; other site 395492007819 Protein of unknown function (DUF1697); Region: DUF1697; cl01557 395492007820 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 395492007821 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395492007822 Domain of Unknown Function (DUF930); Region: DUF930; pfam06059 395492007823 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 395492007824 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 395492007825 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492007826 Domain of unknown function DUF20; Region: UPF0118; pfam01594 395492007827 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 395492007828 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 395492007829 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_12; cd07255 395492007830 putative metal binding site [ion binding]; other site 395492007831 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 395492007832 active site 395492007833 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 395492007834 Ligand Binding Site [chemical binding]; other site 395492007835 Haemolysin-III related; Region: HlyIII; cl03831 395492007836 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 395492007837 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395492007838 Coenzyme A binding pocket [chemical binding]; other site 395492007839 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 395492007840 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 395492007841 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 395492007842 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 395492007843 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 395492007844 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 395492007845 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 395492007846 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395492007847 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 395492007848 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 395492007849 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12647 395492007850 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 395492007851 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 395492007852 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 395492007853 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 395492007854 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12663 395492007855 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 395492007856 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 395492007857 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 395492007858 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 395492007859 Predicted transcriptional regulator [Transcription]; Region: COG4957 395492007860 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 395492007861 Fe-S metabolism associated domain; Region: SufE; cl00951 395492007862 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 395492007863 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 395492007864 dimer interface [polypeptide binding]; other site 395492007865 phosphorylation site [posttranslational modification] 395492007866 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 395492007867 ATP binding site [chemical binding]; other site 395492007868 Mg2+ binding site [ion binding]; other site 395492007869 G-X-G motif; other site 395492007870 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 395492007871 dihydrolipoamide succinyltransferase; Provisional; Region: PTZ00144 395492007872 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 395492007873 Cupin domain; Region: Cupin_2; cl09118 395492007874 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395492007875 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395492007876 oxidoreductase; Provisional; Region: PRK06196 395492007877 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 395492007878 putative NAD(P) binding site [chemical binding]; other site 395492007879 active site 395492007880 Protein of unknown function (DUF1491); Region: DUF1491; cl11568 395492007881 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; cl15419 395492007882 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 395492007883 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 395492007884 Transglycosylase; Region: Transgly; cl07896 395492007885 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 395492007886 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 395492007887 Flagellin N-methylase; Region: FliB; cl00497 395492007888 Helix-turn-helix domains; Region: HTH; cl00088 395492007889 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492007890 NAD(P) binding site [chemical binding]; other site 395492007891 active site 395492007892 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 395492007893 The Delta12 Fatty Acid Desaturase (Delta12-FADS)-like CD includes the integral-membrane enzymes, delta-12 acyl-lipid desaturases, oleate 12-hydroxylases, omega3 and omega6 fatty acid desaturases, and other related proteins, found in a wide range of...; Region: Delta12-FADS-like; cd03507 395492007894 putative di-iron ligands [ion binding]; other site 395492007895 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 395492007896 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395492007897 putative substrate translocation pore; other site 395492007898 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395492007899 Helix-turn-helix domains; Region: HTH; cl00088 395492007900 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_2; cd08464 395492007901 putative substrate binding pocket [chemical binding]; other site 395492007902 putative dimerization interface [polypeptide binding]; other site 395492007903 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 395492007904 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 395492007905 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492007906 NAD(P) binding pocket [chemical binding]; other site 395492007907 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395492007908 Helix-turn-helix domains; Region: HTH; cl00088 395492007909 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 395492007910 putative effector binding pocket; other site 395492007911 dimerization interface [polypeptide binding]; other site 395492007912 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 395492007913 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 395492007914 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 395492007915 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395492007916 DNA-binding site [nucleotide binding]; DNA binding site 395492007917 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 395492007918 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492007919 homodimer interface [polypeptide binding]; other site 395492007920 catalytic residue [active] 395492007921 Protein of unknown function (DUF983); Region: DUF983; cl02211 395492007922 transcriptional regulator; Provisional; Region: PRK10632 395492007923 Helix-turn-helix domains; Region: HTH; cl00088 395492007924 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_2; cd08471 395492007925 putative effector binding pocket; other site 395492007926 putative dimerization interface [polypeptide binding]; other site 395492007927 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 395492007928 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 395492007929 putative C-terminal domain interface [polypeptide binding]; other site 395492007930 putative GSH binding site (G-site) [chemical binding]; other site 395492007931 putative dimer interface [polypeptide binding]; other site 395492007932 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 395492007933 putative N-terminal domain interface [polypeptide binding]; other site 395492007934 putative dimer interface [polypeptide binding]; other site 395492007935 putative substrate binding pocket (H-site) [chemical binding]; other site 395492007936 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 395492007937 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 395492007938 Protein of unknown function (DUF1348); Region: DUF1348; pfam07080 395492007939 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 395492007940 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395492007941 Helix-turn-helix domains; Region: HTH; cl00088 395492007942 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 395492007943 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 395492007944 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 395492007945 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492007946 active site 395492007947 phosphorylation site [posttranslational modification] 395492007948 intermolecular recognition site; other site 395492007949 dimerization interface [polypeptide binding]; other site 395492007950 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 395492007951 DNA binding site [nucleotide binding] 395492007952 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395492007953 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 395492007954 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 395492007955 ATP binding site [chemical binding]; other site 395492007956 Mg2+ binding site [ion binding]; other site 395492007957 G-X-G motif; other site 395492007958 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 395492007959 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 395492007960 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 395492007961 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 395492007962 TPR motif; other site 395492007963 binding surface 395492007964 CcmE; Region: CcmE; cl00994 395492007965 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 395492007966 Cytochrome C biogenesis protein; Region: CcmH; cl01179 395492007967 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 395492007968 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 395492007969 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 395492007970 protein binding site [polypeptide binding]; other site 395492007971 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 395492007972 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 395492007973 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492007974 active site 395492007975 phosphorylation site [posttranslational modification] 395492007976 intermolecular recognition site; other site 395492007977 dimerization interface [polypeptide binding]; other site 395492007978 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 395492007979 DNA binding site [nucleotide binding] 395492007980 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 395492007981 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 395492007982 dimerization interface [polypeptide binding]; other site 395492007983 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 395492007984 dimer interface [polypeptide binding]; other site 395492007985 phosphorylation site [posttranslational modification] 395492007986 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 395492007987 ATP binding site [chemical binding]; other site 395492007988 Mg2+ binding site [ion binding]; other site 395492007989 G-X-G motif; other site 395492007990 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14108 395492007991 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 395492007992 metal binding triad; other site 395492007993 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 395492007994 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 395492007995 metal binding triad; other site 395492007996 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395492007997 PAS fold; Region: PAS_3; pfam08447 395492007998 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 395492007999 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 395492008000 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 395492008001 dimer interface [polypeptide binding]; other site 395492008002 phosphorylation site [posttranslational modification] 395492008003 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 395492008004 ATP binding site [chemical binding]; other site 395492008005 Mg2+ binding site [ion binding]; other site 395492008006 G-X-G motif; other site 395492008007 aminopeptidase N; Provisional; Region: pepN; PRK14015 395492008008 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 395492008009 active site 395492008010 Zn binding site [ion binding]; other site 395492008011 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 395492008012 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395492008013 putative CheW interface [polypeptide binding]; other site 395492008014 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 395492008015 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 395492008016 EamA-like transporter family; Region: EamA; cl01037 395492008017 EamA-like transporter family; Region: EamA; cl01037 395492008018 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 395492008019 Fe-S cluster binding site [ion binding]; other site 395492008020 active site 395492008021 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 395492008022 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 395492008023 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395492008024 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395492008025 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395492008026 Phosphotransferase enzyme family; Region: APH; pfam01636 395492008027 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 395492008028 active site 395492008029 substrate binding site [chemical binding]; other site 395492008030 ATP binding site [chemical binding]; other site 395492008031 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 395492008032 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 395492008033 putative NAD(P) binding site [chemical binding]; other site 395492008034 putative active site [active] 395492008035 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 395492008036 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492008037 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 395492008038 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 395492008039 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 395492008040 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 395492008041 EamA-like transporter family; Region: EamA; cl01037 395492008042 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 395492008043 Helix-turn-helix domains; Region: HTH; cl00088 395492008044 Helix-turn-helix domains; Region: HTH; cl00088 395492008045 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 395492008046 MgtE intracellular N domain; Region: MgtE_N; cl15244 395492008047 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 395492008048 Divalent cation transporter; Region: MgtE; cl00786 395492008049 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 395492008050 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 395492008051 putative NAD(P) binding site [chemical binding]; other site 395492008052 dimer interface [polypeptide binding]; other site 395492008053 Helix-turn-helix domains; Region: HTH; cl00088 395492008054 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 395492008055 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395492008056 putative substrate translocation pore; other site 395492008057 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 395492008058 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 395492008059 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 395492008060 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 395492008061 putative aminotransferase; Validated; Region: PRK07480 395492008062 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 395492008063 inhibitor-cofactor binding pocket; inhibition site 395492008064 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492008065 catalytic residue [active] 395492008066 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 395492008067 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 395492008068 Ligand binding site; other site 395492008069 Putative Catalytic site; other site 395492008070 DXD motif; other site 395492008071 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 395492008072 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 395492008073 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 395492008074 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 395492008075 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 395492008076 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 395492008077 YCII-related domain; Region: YCII; cl00999 395492008078 YCII-related domain; Region: YCII; cl00999 395492008079 YCII-related domain; Region: YCII; cl00999 395492008080 AMP nucleosidase; Provisional; Region: PRK08292 395492008081 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 395492008082 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 395492008083 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 395492008084 Sel1 repeat; Region: Sel1; cl02723 395492008085 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 395492008086 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 395492008087 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492008088 homodimer interface [polypeptide binding]; other site 395492008089 catalytic residue [active] 395492008090 Predicted membrane protein (DUF2177); Region: DUF2177; cl02014 395492008091 Protein required for attachment to host cells; Region: Host_attach; cl02398 395492008092 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395492008093 Helix-turn-helix domains; Region: HTH; cl00088 395492008094 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 395492008095 MatE; Region: MatE; cl10513 395492008096 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 395492008097 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395492008098 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 395492008099 KduI/IolB family; Region: KduI; cl01508 395492008100 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 395492008101 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 395492008102 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 395492008103 PYR/PP interface [polypeptide binding]; other site 395492008104 dimer interface [polypeptide binding]; other site 395492008105 TPP binding site [chemical binding]; other site 395492008106 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 395492008107 Thiamine pyrophosphate (TPP) family, IolD subfamily, TPP-binding module; composed of proteins similar to Rhizobium leguminosarum bv. viciae IolD. IolD plays an important role in myo-inositol catabolism; Region: TPP_IolD; cd02003 395492008108 TPP-binding site; other site 395492008109 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 395492008110 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 395492008111 substrate binding site [chemical binding]; other site 395492008112 ATP binding site [chemical binding]; other site 395492008113 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 395492008114 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 395492008115 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 395492008116 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 395492008117 putative active site [active] 395492008118 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395492008119 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492008120 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 395492008121 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 395492008122 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395492008123 Porin subfamily; Region: Porin_2; pfam02530 395492008124 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395492008125 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 395492008126 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 395492008127 N-acetyl-D-glucosamine binding site [chemical binding]; other site 395492008128 catalytic residue [active] 395492008129 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 395492008130 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 395492008131 dimer interface [polypeptide binding]; other site 395492008132 active site 395492008133 catalytic residue [active] 395492008134 Small protein B (SmpB) is a component of the trans-translation system in prokaryotes for releasing stalled ribosome from damaged messenger RNAs; Region: SmpB; cd09294 395492008135 SmpB-tmRNA interface; other site 395492008136 Uncharacterized conserved protein [Function unknown]; Region: COG1432 395492008137 LabA_like proteins; Region: LabA; cd10911 395492008138 putative metal binding site [ion binding]; other site 395492008139 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 395492008140 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 395492008141 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 395492008142 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 395492008143 synthetase active site [active] 395492008144 NTP binding site [chemical binding]; other site 395492008145 metal binding site [ion binding]; metal-binding site 395492008146 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 395492008147 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 395492008148 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 395492008149 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 395492008150 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 395492008151 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 395492008152 Catalytic site [active] 395492008153 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 395492008154 ribonuclease III; Reviewed; Region: PRK12371 395492008155 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 395492008156 dimerization interface [polypeptide binding]; other site 395492008157 active site 395492008158 metal binding site [ion binding]; metal-binding site 395492008159 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 395492008160 dsRNA binding site [nucleotide binding]; other site 395492008161 GTPase Era; Reviewed; Region: era; PRK00089 395492008162 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 395492008163 G1 box; other site 395492008164 GTP/Mg2+ binding site [chemical binding]; other site 395492008165 Switch I region; other site 395492008166 G2 box; other site 395492008167 Switch II region; other site 395492008168 G3 box; other site 395492008169 G4 box; other site 395492008170 G5 box; other site 395492008171 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 395492008172 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 395492008173 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 395492008174 ligand binding site [chemical binding]; other site 395492008175 flexible hinge region; other site 395492008176 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 395492008177 putative switch regulator; other site 395492008178 non-specific DNA interactions [nucleotide binding]; other site 395492008179 DNA binding site [nucleotide binding] 395492008180 sequence specific DNA binding site [nucleotide binding]; other site 395492008181 putative cAMP binding site [chemical binding]; other site 395492008182 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492008183 active site 395492008184 phosphorylation site [posttranslational modification] 395492008185 intermolecular recognition site; other site 395492008186 dimerization interface [polypeptide binding]; other site 395492008187 DDE superfamily endonuclease; Region: DDE_4; cl15789 395492008188 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 395492008189 DDE superfamily endonuclease; Region: DDE_4; cl15789 395492008190 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 395492008191 Recombination protein O N terminal; Region: RecO_N; cl15812 395492008192 Recombination protein O C terminal; Region: RecO_C; pfam02565 395492008193 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 395492008194 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 395492008195 active site 395492008196 catalytic tetrad [active] 395492008197 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 395492008198 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 395492008199 MOSC domain; Region: MOSC; pfam03473 395492008200 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 395492008201 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 395492008202 PAS fold; Region: PAS_7; pfam12860 395492008203 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395492008204 metal binding site [ion binding]; metal-binding site 395492008205 active site 395492008206 I-site; other site 395492008207 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 395492008208 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 395492008209 E-class dimer interface [polypeptide binding]; other site 395492008210 P-class dimer interface [polypeptide binding]; other site 395492008211 active site 395492008212 Cu2+ binding site [ion binding]; other site 395492008213 Zn2+ binding site [ion binding]; other site 395492008214 Conserved TM helix; Region: TM_helix; pfam05552 395492008215 Mechanosensitive ion channel; Region: MS_channel; pfam00924 395492008216 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 395492008217 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 395492008218 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 395492008219 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 395492008220 Protein of unknown function (DUF2385); Region: DUF2385; cl11490 395492008221 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_15; cd04673 395492008222 nudix motif; other site 395492008223 Uncharacterized BCR, YnfA/UPF0060 family; Region: UPF0060; cl00757 395492008224 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 395492008225 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 395492008226 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 395492008227 CDP-alcohol phosphatidyltransferase 2; Region: CDP-OH_P_tran_2; pfam08009 395492008228 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 395492008229 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 395492008230 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 395492008231 ATM1 is an ABC transporter that is expressed in the mitochondria. Although the specific function of ATM1 is unknown, its disruption results in the accumulation of excess mitochondrial iron, loss of mitochondrial cytochromes, oxidative damage to...; Region: ABCC_ATM1_transporter; cd03253 395492008232 Walker A/P-loop; other site 395492008233 ATP binding site [chemical binding]; other site 395492008234 Q-loop/lid; other site 395492008235 ABC transporter signature motif; other site 395492008236 Walker B; other site 395492008237 D-loop; other site 395492008238 H-loop/switch region; other site 395492008239 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 395492008240 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 395492008241 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 395492008242 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395492008243 Helix-turn-helix domains; Region: HTH; cl00088 395492008244 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_2; cd08464 395492008245 putative substrate binding pocket [chemical binding]; other site 395492008246 putative dimerization interface [polypeptide binding]; other site 395492008247 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 395492008248 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395492008249 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395492008250 Predicted permeases [General function prediction only]; Region: RarD; COG2962 395492008251 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 395492008252 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395492008253 Coenzyme A binding pocket [chemical binding]; other site 395492008254 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 395492008255 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 395492008256 active site 395492008257 catalytic residues [active] 395492008258 metal binding site [ion binding]; metal-binding site 395492008259 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 395492008260 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 395492008261 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 395492008262 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 395492008263 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 395492008264 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 395492008265 putative active site [active] 395492008266 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 395492008267 tRNA synthetases class I (C) catalytic domain; Region: tRNA-synt_1e; pfam01406 395492008268 active site 395492008269 HIGH motif; other site 395492008270 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 395492008271 KMSKS motif; other site 395492008272 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 395492008273 Uncharacterized bacterial muramidase containing a glycosyl hydrolase family 25 (GH25) catalytic domain. Endo-N-acetylmuramidases are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis...; Region: GH25_muramidase_1; cd06413 395492008274 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 395492008275 active site 395492008276 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 395492008277 classical (c) SDRs; Region: SDR_c; cd05233 395492008278 NAD(P) binding site [chemical binding]; other site 395492008279 active site 395492008280 amidophosphoribosyltransferase; Provisional; Region: PRK09123 395492008281 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 395492008282 active site 395492008283 tetramer interface [polypeptide binding]; other site 395492008284 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 395492008285 active site 395492008286 Colicin V production protein; Region: Colicin_V; cl00567 395492008287 DNA repair protein RadA; Provisional; Region: PRK11823 395492008288 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 395492008289 Walker A motif/ATP binding site; other site 395492008290 ATP binding site [chemical binding]; other site 395492008291 Walker B motif; other site 395492008292 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 395492008293 LysE type translocator; Region: LysE; cl00565 395492008294 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 395492008295 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 395492008296 active site 395492008297 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 395492008298 dimer interface [polypeptide binding]; other site 395492008299 substrate binding site [chemical binding]; other site 395492008300 catalytic residues [active] 395492008301 Cupin domain; Region: Cupin_2; cl09118 395492008302 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395492008303 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395492008304 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395492008305 AzlC protein; Region: AzlC; cl00570 395492008306 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 395492008307 replicative DNA helicase; Provisional; Region: PRK09165 395492008308 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 395492008309 DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a...; Region: DnaB_C; cd00984 395492008310 Walker A motif; other site 395492008311 ATP binding site [chemical binding]; other site 395492008312 Walker B motif; other site 395492008313 DNA binding loops [nucleotide binding] 395492008314 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 395492008315 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 395492008316 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 395492008317 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 395492008318 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 395492008319 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 395492008320 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 395492008321 active site 395492008322 catalytic tetrad [active] 395492008323 Acyl transferase domain; Region: Acyl_transf_1; cl08282 395492008324 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 395492008325 3-ketoacyl-(acyl-carrier-protein) reductase NodG; Reviewed; Region: PRK12936 395492008326 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 395492008327 NAD(P) binding site [chemical binding]; other site 395492008328 homotetramer interface [polypeptide binding]; other site 395492008329 homodimer interface [polypeptide binding]; other site 395492008330 active site 395492008331 Phosphopantetheine attachment site; Region: PP-binding; cl09936 395492008332 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 395492008333 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 395492008334 dimer interface [polypeptide binding]; other site 395492008335 active site 395492008336 YceG-like family; Region: YceG; pfam02618 395492008337 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 395492008338 dimerization interface [polypeptide binding]; other site 395492008339 hypothetical protein; Provisional; Region: PRK11820 395492008340 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 395492008341 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 395492008342 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 395492008343 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine...; Region: GMPK; cd00071 395492008344 catalytic site [active] 395492008345 G-X2-G-X-G-K; other site 395492008346 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 395492008347 S-adenosylmethionine binding site [chemical binding]; other site 395492008348 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 395492008349 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 395492008350 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 395492008351 SurA N-terminal domain; Region: SurA_N_3; cl07813 395492008352 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 395492008353 Organic solvent tolerance protein; Region: OstA_C; pfam04453 395492008354 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 395492008355 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 395492008356 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 395492008357 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 395492008358 active site 395492008359 multifunctional aminopeptidase A; Provisional; Region: PRK00913 395492008360 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 395492008361 interface (dimer of trimers) [polypeptide binding]; other site 395492008362 Substrate-binding/catalytic site; other site 395492008363 Zn-binding sites [ion binding]; other site 395492008364 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 395492008365 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395492008366 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492008367 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 395492008368 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395492008369 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 395492008370 NodB motif; other site 395492008371 active site 395492008372 catalytic site [active] 395492008373 metal binding site [ion binding]; metal-binding site 395492008374 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 395492008375 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 395492008376 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 395492008377 ABC transporter; Region: ABC_tran_2; pfam12848 395492008378 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 395492008379 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395492008380 metal binding site [ion binding]; metal-binding site 395492008381 active site 395492008382 I-site; other site 395492008383 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 395492008384 DinB superfamily; Region: DinB_2; pfam12867 395492008385 GST_N family, Beta etherase LigE subfamily; composed of proteins similar to Sphingomonas paucimobilis beta etherase, LigE, a GST-like protein that catalyzes the cleavage of the beta-aryl ether linkages present in low-moleculer weight lignins using GSH as...; Region: GST_N_etherase_LigE; cd03038 395492008386 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 395492008387 putative C-terminal domain interface [polypeptide binding]; other site 395492008388 putative GSH binding site (G-site) [chemical binding]; other site 395492008389 putative dimer interface [polypeptide binding]; other site 395492008390 C-terminal, alpha helical domain of Beta etherase LigE; Region: GST_C_etherase_LigE; cd03202 395492008391 putative N-terminal domain interface [polypeptide binding]; other site 395492008392 putative dimer interface [polypeptide binding]; other site 395492008393 putative substrate binding pocket (H-site) [chemical binding]; other site 395492008394 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 395492008395 active site 395492008396 multimer interface [polypeptide binding]; other site 395492008397 Conserved protein containing a Zn-ribbon-like motif, possibly RNA-binding [General function prediction only]; Region: COG5516 395492008398 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 395492008399 CGNR zinc finger; Region: zf-CGNR; pfam11706 395492008400 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 395492008401 TM-ABC transporter signature motif; other site 395492008402 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 395492008403 MoaE homodimer interface [polypeptide binding]; other site 395492008404 MoaD interaction [polypeptide binding]; other site 395492008405 active site residues [active] 395492008406 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 395492008407 MoaE interaction surface [polypeptide binding]; other site 395492008408 MoeB interaction surface [polypeptide binding]; other site 395492008409 thiocarboxylated glycine; other site 395492008410 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 395492008411 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 395492008412 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 395492008413 GIY-YIG motif/motif A; other site 395492008414 active site 395492008415 catalytic site [active] 395492008416 putative DNA binding site [nucleotide binding]; other site 395492008417 metal binding site [ion binding]; metal-binding site 395492008418 UvrB/uvrC motif; Region: UVR; pfam02151 395492008419 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 395492008420 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492008421 pteridine reductase; Provisional; Region: PRK09135 395492008422 NAD(P) binding site [chemical binding]; other site 395492008423 active site 395492008424 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 395492008425 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 395492008426 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 395492008427 putative C-terminal domain interface [polypeptide binding]; other site 395492008428 putative GSH binding site (G-site) [chemical binding]; other site 395492008429 putative dimer interface [polypeptide binding]; other site 395492008430 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 395492008431 dimer interface [polypeptide binding]; other site 395492008432 N-terminal domain interface [polypeptide binding]; other site 395492008433 putative substrate binding pocket (H-site) [chemical binding]; other site 395492008434 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 395492008435 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 395492008436 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 395492008437 putative [4Fe-4S] binding site [ion binding]; other site 395492008438 putative molybdopterin cofactor binding site [chemical binding]; other site 395492008439 The MopB_CT_3 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_3; cd02786 395492008440 putative molybdopterin cofactor binding site; other site 395492008441 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 395492008442 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 395492008443 dimer interface [polypeptide binding]; other site 395492008444 ADP-ribose binding site [chemical binding]; other site 395492008445 active site 395492008446 nudix motif; other site 395492008447 metal binding site [ion binding]; metal-binding site 395492008448 phosphonate metabolism protein PhnM; Region: phosphono_phnM; TIGR02318 395492008449 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 395492008450 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 395492008451 active site 395492008452 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 395492008453 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 395492008454 active site 395492008455 substrate binding site [chemical binding]; other site 395492008456 cosubstrate binding site; other site 395492008457 catalytic site [active] 395492008458 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 395492008459 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 395492008460 dimerization interface [polypeptide binding]; other site 395492008461 putative ATP binding site [chemical binding]; other site 395492008462 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 395492008463 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492008464 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 395492008465 polyphosphate kinase; Provisional; Region: PRK05443 395492008466 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 395492008467 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 395492008468 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 395492008469 putative domain interface [polypeptide binding]; other site 395492008470 putative active site [active] 395492008471 catalytic site [active] 395492008472 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 395492008473 putative domain interface [polypeptide binding]; other site 395492008474 putative active site [active] 395492008475 catalytic site [active] 395492008476 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 395492008477 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 395492008478 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4222 395492008479 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 395492008480 cyclase homology domain; Region: CHD; cd07302 395492008481 nucleotidyl binding site; other site 395492008482 metal binding site [ion binding]; metal-binding site 395492008483 dimer interface [polypeptide binding]; other site 395492008484 ribonuclease D; Region: rnd; TIGR01388 395492008485 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 395492008486 catalytic site [active] 395492008487 putative active site [active] 395492008488 putative substrate binding site [chemical binding]; other site 395492008489 HRDC domain; Region: HRDC; cl02578 395492008490 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 395492008491 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 395492008492 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 395492008493 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 395492008494 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 395492008495 EcAspRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli aspartyl-tRNA synthetase (AspRS), the human mitochondrial (mt) AspRS-2, the discriminating (D) Thermus thermophilus AspRS-1, and the nondiscriminating (ND)...; Region: EcAspRS_like_N; cd04317 395492008496 dimer interface [polypeptide binding]; other site 395492008497 anticodon binding site; other site 395492008498 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 395492008499 homodimer interface [polypeptide binding]; other site 395492008500 motif 1; other site 395492008501 active site 395492008502 motif 2; other site 395492008503 GAD domain; Region: GAD; pfam02938 395492008504 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 395492008505 active site 395492008506 motif 3; other site 395492008507 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 395492008508 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395492008509 Helix-turn-helix domains; Region: HTH; cl00088 395492008510 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 395492008511 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 395492008512 CAP-like domain; other site 395492008513 active site 395492008514 primary dimer interface [polypeptide binding]; other site 395492008515 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 395492008516 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 395492008517 putative hydrophobic ligand binding site [chemical binding]; other site 395492008518 EamA-like transporter family; Region: EamA; cl01037 395492008519 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 395492008520 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 395492008521 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395492008522 RDD family; Region: RDD; cl00746 395492008523 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 395492008524 dimer interface [polypeptide binding]; other site 395492008525 allosteric magnesium binding site [ion binding]; other site 395492008526 active site 395492008527 aspartate-rich active site metal binding site; other site 395492008528 Schiff base residues; other site 395492008529 Helix-turn-helix domains; Region: HTH; cl00088 395492008530 L-ascorbate oxidase; Region: PLN02191 395492008531 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 395492008532 Endodeoxyribonuclease RusA; Region: RusA; cl01885 395492008533 HNH endonuclease; Region: HNH_3; pfam13392 395492008534 Helix-turn-helix domain; Region: HTH_39; pfam14090 395492008535 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 395492008536 HNH endonuclease; Region: HNH_3; pfam13392 395492008537 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 395492008538 DNA-binding interface [nucleotide binding]; DNA binding site 395492008539 Phage terminase large subunit; Region: Terminase_3; cl12054 395492008540 Protein of unknown function (DUF4043); Region: DUF4043; pfam13252 395492008541 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 395492008542 N-acetyl-D-glucosamine binding site [chemical binding]; other site 395492008543 catalytic residue [active] 395492008544 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; cl15381 395492008545 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 395492008546 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 395492008547 type IV secretion system component VirD4; Provisional; Region: PRK13897 395492008548 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492008549 Walker A motif; other site 395492008550 ATP binding site [chemical binding]; other site 395492008551 Walker B motif; other site 395492008552 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 395492008553 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 395492008554 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 395492008555 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 395492008556 active site 395492008557 DNA binding site [nucleotide binding] 395492008558 Int/Topo IB signature motif; other site 395492008559 HNH endonuclease; Region: HNH_3; pfam13392 395492008560 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 395492008561 DNA-binding interface [nucleotide binding]; DNA binding site 395492008562 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 395492008563 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 395492008564 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 395492008565 active site 395492008566 LssY C-terminus; Region: LssY_C; pfam14067 395492008567 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 395492008568 active site 395492008569 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395492008570 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395492008571 putative substrate translocation pore; other site 395492008572 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 395492008573 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 395492008574 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 395492008575 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 395492008576 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 395492008577 dimer interface [polypeptide binding]; other site 395492008578 active site 395492008579 glycine-pyridoxal phosphate binding site [chemical binding]; other site 395492008580 folate binding site [chemical binding]; other site 395492008581 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 395492008582 ATP cone domain; Region: ATP-cone; pfam03477 395492008583 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 395492008584 Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the...; Region: Riboflavin_deaminase-reductase; cd01284 395492008585 catalytic motif [active] 395492008586 Zn binding site [ion binding]; other site 395492008587 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 395492008588 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 395492008589 Lumazine binding domain; Region: Lum_binding; pfam00677 395492008590 Lumazine binding domain; Region: Lum_binding; pfam00677 395492008591 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 395492008592 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 395492008593 substrate binding site; other site 395492008594 tetramer interface; other site 395492008595 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 395492008596 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 395492008597 NADP binding site [chemical binding]; other site 395492008598 active site 395492008599 putative substrate binding site [chemical binding]; other site 395492008600 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 395492008601 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 395492008602 NAD binding site [chemical binding]; other site 395492008603 substrate binding site [chemical binding]; other site 395492008604 homodimer interface [polypeptide binding]; other site 395492008605 active site 395492008606 Cupin domain; Region: Cupin_2; cl09118 395492008607 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 395492008608 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395492008609 Cupin domain; Region: Cupin_2; cl09118 395492008610 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-I; Region: Lumazine_synthase-I; cd09209 395492008611 homopentamer interface [polypeptide binding]; other site 395492008612 active site 395492008613 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 395492008614 putative RNA binding site [nucleotide binding]; other site 395492008615 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; cl11452 395492008616 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 395492008617 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 395492008618 Ubiquinol-cytochrome C chaperone; Region: Ubiq_cyt_C_chap; cl12045 395492008619 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 395492008620 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 395492008621 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 395492008622 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 395492008623 dimer interface [polypeptide binding]; other site 395492008624 active site 395492008625 CoA binding pocket [chemical binding]; other site 395492008626 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 395492008627 IHF dimer interface [polypeptide binding]; other site 395492008628 IHF - DNA interface [nucleotide binding]; other site 395492008629 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 395492008630 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 395492008631 DNA binding residues [nucleotide binding] 395492008632 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395492008633 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492008634 active site 395492008635 phosphorylation site [posttranslational modification] 395492008636 intermolecular recognition site; other site 395492008637 dimerization interface [polypeptide binding]; other site 395492008638 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 395492008639 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 395492008640 dimer interface [polypeptide binding]; other site 395492008641 phosphorylation site [posttranslational modification] 395492008642 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 395492008643 ATP binding site [chemical binding]; other site 395492008644 Mg2+ binding site [ion binding]; other site 395492008645 G-X-G motif; other site 395492008646 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395492008647 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492008648 active site 395492008649 phosphorylation site [posttranslational modification] 395492008650 intermolecular recognition site; other site 395492008651 dimerization interface [polypeptide binding]; other site 395492008652 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 395492008653 cellulose synthase catalytic subunit (UDP-forming); Region: CelA; TIGR03030 395492008654 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 395492008655 DXD motif; other site 395492008656 PilZ domain; Region: PilZ; cl01260 395492008657 Bacterial cellulose synthase subunit; Region: BcsB; cl15851 395492008658 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 395492008659 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 395492008660 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 395492008661 motif II; other site 395492008662 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 395492008663 Protein of unknown function (DUF982); Region: DUF982; pfam06169 395492008664 Predicted transcription factor, homolog of eukaryotic MBF1 [Transcription]; Region: COG1813 395492008665 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 395492008666 Helix-turn-helix domains; Region: HTH; cl00088 395492008667 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 395492008668 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 395492008669 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 395492008670 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395492008671 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395492008672 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492008673 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492008674 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 395492008675 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395492008676 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492008677 dimer interface [polypeptide binding]; other site 395492008678 conserved gate region; other site 395492008679 putative PBP binding loops; other site 395492008680 ABC-ATPase subunit interface; other site 395492008681 O-Antigen ligase; Region: Wzy_C; cl04850 395492008682 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 395492008683 Bacterial sugar transferase; Region: Bac_transf; cl00939 395492008684 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 395492008685 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395492008686 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 395492008687 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 395492008688 SLBB domain; Region: SLBB; pfam10531 395492008689 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 395492008690 Chain length determinant protein; Region: Wzz; cl15801 395492008691 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 395492008692 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395492008693 Protein of unknown function (DUF2842); Region: DUF2842; pfam11003 395492008694 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 395492008695 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 395492008696 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 395492008697 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 395492008698 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492008699 Arginase family; Region: Arginase; cl00306 395492008700 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 395492008701 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395492008702 putative substrate translocation pore; other site 395492008703 OpgC protein; Region: OpgC_C; cl00792 395492008704 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 395492008705 Ribosomal protein L13. Protein L13, a large ribosomal subunit protein, is one of five proteins required for an early folding intermediate of 23S rRNA in the assembly of the large subunit. L13 is situated on the bottom of the large subunit, near the...; Region: Ribosomal_L13; cd00392 395492008706 23S rRNA interface [nucleotide binding]; other site 395492008707 L3 interface [polypeptide binding]; other site 395492008708 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395492008709 Helix-turn-helix domains; Region: HTH; cl00088 395492008710 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 395492008711 dimerization interface [polypeptide binding]; other site 395492008712 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 395492008713 enoyl-CoA hydratase; Validated; Region: PRK08139 395492008714 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 395492008715 substrate binding site [chemical binding]; other site 395492008716 oxyanion hole (OAH) forming residues; other site 395492008717 trimer interface [polypeptide binding]; other site 395492008718 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 395492008719 EamA-like transporter family; Region: EamA; cl01037 395492008720 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492008721 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK05994 395492008722 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 395492008723 homodimer interface [polypeptide binding]; other site 395492008724 substrate-cofactor binding pocket; other site 395492008725 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492008726 catalytic residue [active] 395492008727 Cupin domain; Region: Cupin_2; cl09118 395492008728 CHASE4 domain; Region: CHASE4; cl01308 395492008729 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395492008730 metal binding site [ion binding]; metal-binding site 395492008731 active site 395492008732 I-site; other site 395492008733 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 395492008734 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 395492008735 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395492008736 metal binding site [ion binding]; metal-binding site 395492008737 active site 395492008738 I-site; other site 395492008739 Clp protease; Region: CLP_protease; pfam00574 395492008740 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 395492008741 oligomer interface [polypeptide binding]; other site 395492008742 active site residues [active] 395492008743 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 395492008744 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 395492008745 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 395492008746 Walker A motif; other site 395492008747 ATP binding site [chemical binding]; other site 395492008748 Walker B motif; other site 395492008749 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 395492008750 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 395492008751 Found in ATP-dependent protease La (LON); Region: LON; smart00464 395492008752 Found in ATP-dependent protease La (LON); Region: LON; smart00464 395492008753 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 395492008754 Walker A motif; other site 395492008755 ATP binding site [chemical binding]; other site 395492008756 Walker B motif; other site 395492008757 arginine finger; other site 395492008758 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 395492008759 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 395492008760 IHF dimer interface [polypeptide binding]; other site 395492008761 IHF - DNA interface [nucleotide binding]; other site 395492008762 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 395492008763 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 395492008764 active site 395492008765 catalytic tetrad [active] 395492008766 Cupin domain; Region: Cupin_2; cl09118 395492008767 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 395492008768 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 395492008769 catalytic residues [active] 395492008770 dimer interface [polypeptide binding]; other site 395492008771 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 395492008772 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 395492008773 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 395492008774 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16919 395492008775 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 395492008776 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 395492008777 NADH dehydrogenase subunit E; Provisional; Region: PRK12373 395492008778 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 395492008779 putative dimer interface [polypeptide binding]; other site 395492008780 [2Fe-2S] cluster binding site [ion binding]; other site 395492008781 Uncharacterized conserved protein [Function unknown]; Region: COG3743 395492008782 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 395492008783 SLBB domain; Region: SLBB; pfam10531 395492008784 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 395492008785 Uncharacterized conserved protein [Function unknown]; Region: COG3743 395492008786 NADH dehydrogenase subunit G; Validated; Region: PRK09130 395492008787 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 395492008788 catalytic loop [active] 395492008789 iron binding site [ion binding]; other site 395492008790 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 395492008791 MopB_Res_Cmplx1_Nad11: The second domain of the Nad11/75-kDa subunit of the NADH-quinone oxidoreductase/respiratory complex I/NADH dehydrogenase-1(NDH-1) of eukaryotes and the Nqo3/G subunit of alphaproteobacteria NDH-1. The NADH-quinone oxidoreductase...; Region: MopB_Res-Cmplx1_Nad11; cd02773 395492008792 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 395492008793 NADH dehydrogenase; Region: NADHdh; cl00469 395492008794 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 395492008795 4Fe-4S binding domain; Region: Fer4; cl02805 395492008796 4Fe-4S binding domain; Region: Fer4; cl02805 395492008797 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 395492008798 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 395492008799 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 395492008800 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 395492008801 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 395492008802 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 395492008803 NADH dehydrogenase subunit 5 C-terminus; Region: NADH5_C; pfam06455 395492008804 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 395492008805 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 395492008806 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 395492008807 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 395492008808 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 395492008809 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 395492008810 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 395492008811 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 395492008812 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 395492008813 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395492008814 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 395492008815 dimer interface [polypeptide binding]; other site 395492008816 substrate binding site [chemical binding]; other site 395492008817 metal binding site [ion binding]; metal-binding site 395492008818 Protein of unknown function (DUF1467); Region: DUF1467; cl11569 395492008819 prolyl-tRNA synthetase; Provisional; Region: PRK12325 395492008820 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: ProRS_core_prok; cd00779 395492008821 dimer interface [polypeptide binding]; other site 395492008822 motif 1; other site 395492008823 active site 395492008824 motif 2; other site 395492008825 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 395492008826 active site 395492008827 motif 3; other site 395492008828 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 395492008829 anticodon binding site; other site 395492008830 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 395492008831 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 395492008832 FtsX-like permease family; Region: FtsX; cl15850 395492008833 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 395492008834 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 395492008835 Walker A/P-loop; other site 395492008836 ATP binding site [chemical binding]; other site 395492008837 Q-loop/lid; other site 395492008838 ABC transporter signature motif; other site 395492008839 Walker B; other site 395492008840 D-loop; other site 395492008841 H-loop/switch region; other site 395492008842 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 395492008843 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 395492008844 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 395492008845 generic binding surface II; other site 395492008846 generic binding surface I; other site 395492008847 hypothetical protein; Provisional; Region: PRK06132 395492008848 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 395492008849 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 395492008850 hypothetical protein; Provisional; Region: PRK06132 395492008851 DNA polymerase IV; Provisional; Region: PRK02794 395492008852 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 395492008853 active site 395492008854 DNA binding site [nucleotide binding] 395492008855 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395492008856 Coenzyme A binding pocket [chemical binding]; other site 395492008857 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 395492008858 Protein of unknown function (DUF3572); Region: DUF3572; pfam12096 395492008859 Response regulator receiver domain; Region: Response_reg; pfam00072 395492008860 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492008861 active site 395492008862 phosphorylation site [posttranslational modification] 395492008863 intermolecular recognition site; other site 395492008864 dimerization interface [polypeptide binding]; other site 395492008865 response regulator PleD; Reviewed; Region: pleD; PRK09581 395492008866 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492008867 active site 395492008868 phosphorylation site [posttranslational modification] 395492008869 intermolecular recognition site; other site 395492008870 dimerization interface [polypeptide binding]; other site 395492008871 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492008872 active site 395492008873 phosphorylation site [posttranslational modification] 395492008874 intermolecular recognition site; other site 395492008875 dimerization interface [polypeptide binding]; other site 395492008876 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395492008877 metal binding site [ion binding]; metal-binding site 395492008878 active site 395492008879 I-site; other site 395492008880 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 395492008881 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395492008882 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395492008883 putative substrate translocation pore; other site 395492008884 Protein of unknown function (DUF983); Region: DUF983; cl02211 395492008885 ribonuclease R; Region: RNase_R; TIGR02063 395492008886 RNB domain; Region: RNB; pfam00773 395492008887 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an important...; Region: S1_RNase_R; cd04471 395492008888 RNA binding site [nucleotide binding]; other site 395492008889 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 395492008890 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 395492008891 active site 395492008892 interdomain interaction site; other site 395492008893 putative metal-binding site [ion binding]; other site 395492008894 nucleotide binding site [chemical binding]; other site 395492008895 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 395492008896 domain I; other site 395492008897 DNA binding groove [nucleotide binding] 395492008898 phosphate binding site [ion binding]; other site 395492008899 domain II; other site 395492008900 domain III; other site 395492008901 nucleotide binding site [chemical binding]; other site 395492008902 catalytic site [active] 395492008903 domain IV; other site 395492008904 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 395492008905 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 395492008906 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 395492008907 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 395492008908 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 395492008909 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 395492008910 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 395492008911 dihydroorotase; Validated; Region: PRK09059 395492008912 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 395492008913 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 395492008914 active site 395492008915 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 395492008916 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 395492008917 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492008918 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 395492008919 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 395492008920 active site 395492008921 Uncharacterized protein conserved in bacteria (DUF2191); Region: DUF2191; cl02270 395492008922 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 395492008923 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 395492008924 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 395492008925 AMIN domain; Region: AMIN; pfam11741 395492008926 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 395492008927 active site 395492008928 metal binding site [ion binding]; metal-binding site 395492008929 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 395492008930 Transglycosylase; Region: Transgly; cl07896 395492008931 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 395492008932 peptide chain release factor 2; Provisional; Region: PRK07342 395492008933 RF-1 domain; Region: RF-1; cl02875 395492008934 RF-1 domain; Region: RF-1; cl02875 395492008935 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 395492008936 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 395492008937 Protease inhibitor Inh; Region: Inh; pfam02974 395492008938 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 395492008939 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 395492008940 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 395492008941 elongation factor Tu; Reviewed; Region: PRK00049 395492008942 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 395492008943 G1 box; other site 395492008944 GEF interaction site [polypeptide binding]; other site 395492008945 GTP/Mg2+ binding site [chemical binding]; other site 395492008946 Switch I region; other site 395492008947 G2 box; other site 395492008948 G3 box; other site 395492008949 Switch II region; other site 395492008950 G4 box; other site 395492008951 G5 box; other site 395492008952 EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the...; Region: EFTU_II; cd03697 395492008953 Domain III of elongation factor (EF) Tu. Ef-Tu consists of three structural domains, designated I, II and III. Domain III adopts a beta barrel structure. Domain III is involved in binding to both charged tRNA and binding to elongation factor Ts (EF-Ts); Region: EFTU_III; cd03707 395492008954 Antibiotic Binding Site [chemical binding]; other site 395492008955 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395492008956 extended (e) SDRs; Region: SDR_e; cd08946 395492008957 NAD(P) binding site [chemical binding]; other site 395492008958 active site 395492008959 substrate binding site [chemical binding]; other site 395492008960 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 395492008961 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 395492008962 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 395492008963 putative homodimer interface [polypeptide binding]; other site 395492008964 KOW motif; Region: KOW; cl00354 395492008965 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 395492008966 Ribosomal protein L11. Ribosomal protein L11, together with proteins L10 and L7/L12, and 23S rRNA, form the L7/L12 stalk on the surface of the large subunit of the ribosome. The homologous eukaryotic cytoplasmic protein is also called 60S ribosomal...; Region: Ribosomal_L11; cd00349 395492008967 23S rRNA interface [nucleotide binding]; other site 395492008968 L7/L12 interface [polypeptide binding]; other site 395492008969 putative thiostrepton binding site; other site 395492008970 L25 interface [polypeptide binding]; other site 395492008971 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds...; Region: Ribosomal_L1; cd00403 395492008972 mRNA/rRNA interface [nucleotide binding]; other site 395492008973 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein...; Region: Ribosomal_L10; cd05797 395492008974 23S rRNA interface [nucleotide binding]; other site 395492008975 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 395492008976 Ribosomal protein L7/L12. Ribosomal protein L7/L12 refers to the large ribosomal subunit proteins L7 and L12, which are identical except that L7 is acetylated at the N terminus. It is a component of the L7/L12 stalk, which is located at the surface of...; Region: Ribosomal_L7_L12; cd00387 395492008977 L11 interface [polypeptide binding]; other site 395492008978 putative EF-Tu interaction site [polypeptide binding]; other site 395492008979 putative EF-G interaction site [polypeptide binding]; other site 395492008980 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 395492008981 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 395492008982 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 395492008983 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 395492008984 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 395492008985 RPB11 interaction site [polypeptide binding]; other site 395492008986 RPB12 interaction site [polypeptide binding]; other site 395492008987 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 395492008988 RPB1 interaction site [polypeptide binding]; other site 395492008989 RPB11 interaction site [polypeptide binding]; other site 395492008990 RPB10 interaction site [polypeptide binding]; other site 395492008991 RPB3 interaction site [polypeptide binding]; other site 395492008992 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 395492008993 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 395492008994 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 395492008995 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 395492008996 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 395492008997 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 395492008998 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 395492008999 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 395492009000 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 395492009001 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 395492009002 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 395492009003 DNA binding site [nucleotide binding] 395492009004 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 395492009005 S12-like family, 30S ribosomal protein S12 subfamily; S12 is located at the interface of the large and small ribosomal subunits of prokaryotes, chloroplasts and mitochondria, where it plays an important role in both tRNA and ribosomal subunit...; Region: Ribosomal_S12; cd03368 395492009006 S17 interaction site [polypeptide binding]; other site 395492009007 S8 interaction site; other site 395492009008 16S rRNA interaction site [nucleotide binding]; other site 395492009009 streptomycin interaction site [chemical binding]; other site 395492009010 23S rRNA interaction site [nucleotide binding]; other site 395492009011 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 395492009012 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 395492009013 elongation factor G; Reviewed; Region: PRK00007 395492009014 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 395492009015 G1 box; other site 395492009016 putative GEF interaction site [polypeptide binding]; other site 395492009017 GTP/Mg2+ binding site [chemical binding]; other site 395492009018 Switch I region; other site 395492009019 G2 box; other site 395492009020 G3 box; other site 395492009021 Switch II region; other site 395492009022 G4 box; other site 395492009023 G5 box; other site 395492009024 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 395492009025 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 395492009026 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 395492009027 elongation factor Tu; Reviewed; Region: PRK00049 395492009028 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 395492009029 G1 box; other site 395492009030 GEF interaction site [polypeptide binding]; other site 395492009031 GTP/Mg2+ binding site [chemical binding]; other site 395492009032 Switch I region; other site 395492009033 G2 box; other site 395492009034 G3 box; other site 395492009035 Switch II region; other site 395492009036 G4 box; other site 395492009037 G5 box; other site 395492009038 EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the...; Region: EFTU_II; cd03697 395492009039 Domain III of elongation factor (EF) Tu. Ef-Tu consists of three structural domains, designated I, II and III. Domain III adopts a beta barrel structure. Domain III is involved in binding to both charged tRNA and binding to elongation factor Ts (EF-Ts); Region: EFTU_III; cd03707 395492009040 Antibiotic Binding Site [chemical binding]; other site 395492009041 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 395492009042 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 395492009043 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 395492009044 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 395492009045 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 395492009046 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 395492009047 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 395492009048 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 395492009049 Ribosomal protein L22/L17e. L22 (L17 in eukaryotes) is a core protein of the large ribosomal subunit. It is the only ribosomal protein that interacts with all six domains of 23S rRNA, and is one of the proteins important for directing the proper...; Region: Ribosomal_L22; cd00336 395492009050 putative translocon binding site; other site 395492009051 protein-rRNA interface [nucleotide binding]; other site 395492009052 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 395492009053 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH...; Region: 30S_S3_KH; cd02412 395492009054 G-X-X-G motif; other site 395492009055 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 395492009056 Ribosomal_L16_L10e: L16 is an essential protein in the large ribosomal subunit of bacteria, mitochondria, and chloroplasts. Large subunits that lack L16 are defective in peptidyl transferase activity, peptidyl-tRNA hydrolysis activity, association with...; Region: Ribosomal_L16_L10e; cd01433 395492009057 23S rRNA interface [nucleotide binding]; other site 395492009058 5S rRNA interface [nucleotide binding]; other site 395492009059 putative antibiotic binding site [chemical binding]; other site 395492009060 L25 interface [polypeptide binding]; other site 395492009061 L27 interface [polypeptide binding]; other site 395492009062 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 395492009063 23S rRNA interface [nucleotide binding]; other site 395492009064 putative translocon interaction site; other site 395492009065 signal recognition particle (SRP54) interaction site; other site 395492009066 L23 interface [polypeptide binding]; other site 395492009067 trigger factor interaction site; other site 395492009068 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 395492009069 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 395492009070 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 395492009071 KOW motif; Region: KOW; cl00354 395492009072 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 395492009073 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 395492009074 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 395492009075 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 395492009076 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 395492009077 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 395492009078 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 395492009079 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 395492009080 Ribosomal L18/L5e: L18 (L5e) is a ribosomal protein found in the central protuberance (CP) of the large subunit. L18 binds 5S rRNA and induces a conformational change that stimulates the binding of L5 to 5S rRNA. Association of 5S rRNA with 23S rRNA...; Region: Ribosomal_L18_L5e; cd00432 395492009081 23S rRNA interface [nucleotide binding]; other site 395492009082 L21e interface [polypeptide binding]; other site 395492009083 5S rRNA interface [nucleotide binding]; other site 395492009084 L27 interface [polypeptide binding]; other site 395492009085 L5 interface [polypeptide binding]; other site 395492009086 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 395492009087 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 395492009088 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 395492009089 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 395492009090 23S rRNA binding site [nucleotide binding]; other site 395492009091 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 395492009092 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 395492009093 SecY translocase; Region: SecY; pfam00344 395492009094 adenylate kinase; Reviewed; Region: adk; PRK00279 395492009095 Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for...; Region: ADK; cd01428 395492009096 AMP-binding site [chemical binding]; other site 395492009097 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 395492009098 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 395492009099 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 395492009100 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 395492009101 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 395492009102 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 395492009103 alphaNTD homodimer interface [polypeptide binding]; other site 395492009104 alphaNTD - beta interaction site [polypeptide binding]; other site 395492009105 alphaNTD - beta' interaction site [polypeptide binding]; other site 395492009106 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 395492009107 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 395492009108 Protein of unknown function (DUF2809); Region: DUF2809; pfam10990 395492009109 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 395492009110 TMAO/DMSO reductase; Reviewed; Region: PRK05363 395492009111 YedY_like molybdopterin cofactor (Moco) binding domain, a subgroup of the sulfite oxidase (SO) family of molybdopterin binding domains. Escherichia coli YedY has been propsed to form a heterodimer, consisting of a soluble catalytic subunit termed YedY; Region: YedY_like_Moco; cd02107 395492009112 Moco binding site; other site 395492009113 metal coordination site [ion binding]; other site 395492009114 Dehydratase family; Region: ILVD_EDD; cl00340 395492009115 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 395492009116 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 395492009117 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 395492009118 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 395492009119 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 395492009120 protein binding site [polypeptide binding]; other site 395492009121 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 395492009122 protein binding site [polypeptide binding]; other site 395492009123 recombination factor protein RarA; Reviewed; Region: PRK13342 395492009124 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 395492009125 Walker A motif; other site 395492009126 ATP binding site [chemical binding]; other site 395492009127 Walker B motif; other site 395492009128 arginine finger; other site 395492009129 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 395492009130 Domain of unknown function (DUF1883); Region: DUF1883; pfam08980 395492009131 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395492009132 short chain dehydrogenase; Provisional; Region: PRK06180 395492009133 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 395492009134 NADP binding site [chemical binding]; other site 395492009135 active site 395492009136 steroid binding site; other site 395492009137 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395492009138 Helix-turn-helix domains; Region: HTH; cl00088 395492009139 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 395492009140 putative effector binding pocket; other site 395492009141 putative dimerization interface [polypeptide binding]; other site 395492009142 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395492009143 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 395492009144 Uncharacterized conserved protein [Function unknown]; Region: COG2128 395492009145 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 395492009146 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 395492009147 PAS fold; Region: PAS_7; pfam12860 395492009148 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 395492009149 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 395492009150 dimer interface [polypeptide binding]; other site 395492009151 phosphorylation site [posttranslational modification] 395492009152 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 395492009153 ATP binding site [chemical binding]; other site 395492009154 Mg2+ binding site [ion binding]; other site 395492009155 G-X-G motif; other site 395492009156 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 395492009157 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 395492009158 Catalytic site [active] 395492009159 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 395492009160 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395492009161 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395492009162 DNA binding site [nucleotide binding] 395492009163 domain linker motif; other site 395492009164 Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria; Region: PBP1_MalI_like; cd06289 395492009165 putative dimerization interface [polypeptide binding]; other site 395492009166 putative ligand binding site [chemical binding]; other site 395492009167 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 395492009168 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 395492009169 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 395492009170 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 395492009171 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 395492009172 substrate binding site [chemical binding]; other site 395492009173 oxyanion hole (OAH) forming residues; other site 395492009174 trimer interface [polypeptide binding]; other site 395492009175 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395492009176 Gluconobacter oxydans L-sorbosone dehydrogenase-like; Region: ALDH_SNDH; cd07118 395492009177 NAD(P) binding site [chemical binding]; other site 395492009178 catalytic residues [active] 395492009179 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395492009180 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 395492009181 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492009182 dimer interface [polypeptide binding]; other site 395492009183 putative PBP binding loops; other site 395492009184 ABC-ATPase subunit interface; other site 395492009185 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395492009186 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492009187 dimer interface [polypeptide binding]; other site 395492009188 conserved gate region; other site 395492009189 putative PBP binding loops; other site 395492009190 ABC-ATPase subunit interface; other site 395492009191 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395492009192 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395492009193 Walker A/P-loop; other site 395492009194 ATP binding site [chemical binding]; other site 395492009195 Q-loop/lid; other site 395492009196 ABC transporter signature motif; other site 395492009197 Walker B; other site 395492009198 D-loop; other site 395492009199 H-loop/switch region; other site 395492009200 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 395492009201 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 395492009202 choline dehydrogenase; Validated; Region: PRK02106 395492009203 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492009204 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 395492009205 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395492009206 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492009207 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 395492009208 Succinate dehydrogenase/fumarate reductase, flavoprotein subunit [Energy production and conversion]; Region: SdhA; COG1053 395492009209 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492009210 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 395492009211 putative catalytic site [active] 395492009212 putative phosphate binding site [ion binding]; other site 395492009213 active site 395492009214 metal binding site A [ion binding]; metal-binding site 395492009215 DNA binding site [nucleotide binding] 395492009216 putative AP binding site [nucleotide binding]; other site 395492009217 putative metal binding site B [ion binding]; other site 395492009218 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 395492009219 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492009220 active site 395492009221 phosphorylation site [posttranslational modification] 395492009222 intermolecular recognition site; other site 395492009223 dimerization interface [polypeptide binding]; other site 395492009224 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 395492009225 DNA binding residues [nucleotide binding] 395492009226 dimerization interface [polypeptide binding]; other site 395492009227 Histidine kinase; Region: HisKA_3; pfam07730 395492009228 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 395492009229 ATP binding site [chemical binding]; other site 395492009230 Mg2+ binding site [ion binding]; other site 395492009231 G-X-G motif; other site 395492009232 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 395492009233 FecR protein; Region: FecR; pfam04773 395492009234 CHASE2 domain; Region: CHASE2; cl01732 395492009235 sensory histidine kinase AtoS; Provisional; Region: PRK11360 395492009236 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395492009237 metal binding site [ion binding]; metal-binding site 395492009238 active site 395492009239 I-site; other site 395492009240 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 395492009241 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 395492009242 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 395492009243 BA14K-like protein; Region: BA14K; pfam07886 395492009244 BA14K-like protein; Region: BA14K; pfam07886 395492009245 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 395492009246 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 395492009247 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 395492009248 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 395492009249 Prokaryotic phenylalanine-4-hydroxylase (pro_PheOH); a member of the biopterin-dependent aromatic amino acid hydroxylase family of non-heme, iron(II)-dependent enzymes that also includes the eukaryotic proteins, phenylalanine-4-hydroxylase (eu_PheOH); Region: pro_PheOH; cd03348 395492009250 cofactor binding site; other site 395492009251 metal binding site [ion binding]; metal-binding site 395492009252 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 395492009253 Helix-turn-helix domains; Region: HTH; cl00088 395492009254 Helix-turn-helix domains; Region: HTH; cl00088 395492009255 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 395492009256 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 395492009257 dimer interface [polypeptide binding]; other site 395492009258 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 395492009259 active site 395492009260 Fe binding site [ion binding]; other site 395492009261 Cupin domain; Region: Cupin_2; cl09118 395492009262 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 395492009263 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 395492009264 maleylacetoacetate isomerase; Region: maiA; TIGR01262 395492009265 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 395492009266 C-terminal domain interface [polypeptide binding]; other site 395492009267 GSH binding site (G-site) [chemical binding]; other site 395492009268 putative dimer interface [polypeptide binding]; other site 395492009269 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 395492009270 dimer interface [polypeptide binding]; other site 395492009271 N-terminal domain interface [polypeptide binding]; other site 395492009272 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 395492009273 MEKHLA domain; Region: MEKHLA; pfam08670 395492009274 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 395492009275 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 395492009276 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 395492009277 active site 395492009278 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 395492009279 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 395492009280 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 395492009281 Transcriptional regulator; Region: Transcrip_reg; cl00361 395492009282 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 395492009283 active site 395492009284 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 395492009285 TSCPD domain; Region: TSCPD; cl14834 395492009286 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 395492009287 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 395492009288 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 395492009289 active site 395492009290 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 395492009291 Ligand Binding Site [chemical binding]; other site 395492009292 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 395492009293 putative MPT binding site; other site 395492009294 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 395492009295 TolB amino-terminal domain; Region: TolB_N; cl00639 395492009296 TPR repeat; Region: TPR_11; pfam13414 395492009297 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 395492009298 binding surface 395492009299 TPR motif; other site 395492009300 threonine dehydratase; Validated; Region: PRK08639 395492009301 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 395492009302 tetramer interface [polypeptide binding]; other site 395492009303 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492009304 catalytic residue [active] 395492009305 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 395492009306 Transcriptional activator HlyU; Region: HlyU; cl02273 395492009307 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395492009308 metal binding site [ion binding]; metal-binding site 395492009309 active site 395492009310 I-site; other site 395492009311 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 395492009312 classical (c) SDRs; Region: SDR_c; cd05233 395492009313 NAD(P) binding site [chemical binding]; other site 395492009314 active site 395492009315 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395492009316 Helix-turn-helix domains; Region: HTH; cl00088 395492009317 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 395492009318 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395492009319 Helix-turn-helix domains; Region: HTH; cl00088 395492009320 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492009321 dimerization interface [polypeptide binding]; other site 395492009322 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 395492009323 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 395492009324 active site 395492009325 metal binding site [ion binding]; metal-binding site 395492009326 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 395492009327 PilZ domain; Region: PilZ; cl01260 395492009328 EamA-like transporter family; Region: EamA; cl01037 395492009329 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 395492009330 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 395492009331 Helix-turn-helix domains; Region: HTH; cl00088 395492009332 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 395492009333 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 395492009334 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492009335 Protein of unknown function (DUF1203); Region: DUF1203; pfam06718 395492009336 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395492009337 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 395492009338 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 395492009339 active site residue [active] 395492009340 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 395492009341 active site residue [active] 395492009342 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 395492009343 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 395492009344 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 395492009345 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 395492009346 dimer interface [polypeptide binding]; other site 395492009347 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492009348 catalytic residue [active] 395492009349 anti-sigma factor, putative, ChrR family; Region: anti_sig_ChrR; TIGR02451 395492009350 Cupin domain; Region: Cupin_2; cl09118 395492009351 short chain dehydrogenase; Provisional; Region: PRK06101 395492009352 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492009353 NAD(P) binding site [chemical binding]; other site 395492009354 active site 395492009355 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 395492009356 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 395492009357 S-adenosylmethionine binding site [chemical binding]; other site 395492009358 Uncharacterized conserved protein [Function unknown]; Region: COG3496 395492009359 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 395492009360 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 395492009361 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492009362 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 395492009363 DNA photolyase; Region: DNA_photolyase; pfam00875 395492009364 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 395492009365 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 395492009366 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 395492009367 putative DNA binding site [nucleotide binding]; other site 395492009368 putative Zn2+ binding site [ion binding]; other site 395492009369 Helix-turn-helix domains; Region: HTH; cl00088 395492009370 Protein of unknown function (DUF2000); Region: DUF2000; cl02074 395492009371 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 395492009372 putative phosphatase; Provisional; Region: PRK11587 395492009373 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 395492009374 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 395492009375 [4Fe-4S] binding site [ion binding]; other site 395492009376 molybdopterin cofactor binding site; other site 395492009377 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 395492009378 molybdopterin cofactor binding site; other site 395492009379 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 395492009380 Small subunit of nitrite reductase (NirD) family, Rieske domain; composed of proteins similar to the Bacillus subtilis small subunit of assimilatory nitrite reductase containing a Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain...; Region: Rieske_NirD_small_Bacillus; cd03530 395492009381 [2Fe-2S] cluster binding site [ion binding]; other site 395492009382 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 395492009383 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395492009384 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 395492009385 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 395492009386 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 395492009387 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 395492009388 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395492009389 putative substrate translocation pore; other site 395492009390 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 395492009391 NMT1-like family; Region: NMT1_2; cl15260 395492009392 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 395492009393 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492009394 active site 395492009395 phosphorylation site [posttranslational modification] 395492009396 intermolecular recognition site; other site 395492009397 ANTAR domain; Region: ANTAR; cl04297 395492009398 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 395492009399 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 395492009400 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 395492009401 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 395492009402 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 395492009403 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 395492009404 dimer interface [polypeptide binding]; other site 395492009405 decamer (pentamer of dimers) interface [polypeptide binding]; other site 395492009406 catalytic triad [active] 395492009407 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 395492009408 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 395492009409 N-acetyl-D-glucosamine binding site [chemical binding]; other site 395492009410 catalytic residue [active] 395492009411 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395492009412 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492009413 NAD(P) binding site [chemical binding]; other site 395492009414 active site 395492009415 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492009416 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 395492009417 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 395492009418 MOFRL family; Region: MOFRL; pfam05161 395492009419 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 395492009420 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395492009421 Low affinity iron permease; Region: Iron_permease; cl12096 395492009422 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 395492009423 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 395492009424 tetramer interface [polypeptide binding]; other site 395492009425 heme binding pocket [chemical binding]; other site 395492009426 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 395492009427 domain interactions; other site 395492009428 KTSC domain; Region: KTSC; pfam13619 395492009429 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 395492009430 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 395492009431 Protein of unknown function (DUF2497); Region: DUF2497; cl11534 395492009432 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 395492009433 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 395492009434 HIGH motif; other site 395492009435 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 395492009436 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 395492009437 active site 395492009438 KMSKS motif; other site 395492009439 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 395492009440 tRNA binding surface [nucleotide binding]; other site 395492009441 anticodon binding site; other site 395492009442 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 395492009443 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 395492009444 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 395492009445 Sel1 repeat; Region: Sel1; cl02723 395492009446 Sel1 repeat; Region: Sel1; cl02723 395492009447 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 395492009448 putative catalytic site [active] 395492009449 putative phosphate binding site [ion binding]; other site 395492009450 active site 395492009451 metal binding site A [ion binding]; metal-binding site 395492009452 DNA binding site [nucleotide binding] 395492009453 putative AP binding site [nucleotide binding]; other site 395492009454 putative metal binding site B [ion binding]; other site 395492009455 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 395492009456 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 395492009457 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 395492009458 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 395492009459 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 395492009460 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 395492009461 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 395492009462 active site 395492009463 HIGH motif; other site 395492009464 KMSK motif region; other site 395492009465 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 395492009466 tRNA binding surface [nucleotide binding]; other site 395492009467 anticodon binding site; other site 395492009468 Sporulation related domain; Region: SPOR; cl10051 395492009469 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 395492009470 ScpA/B protein; Region: ScpA_ScpB; cl00598 395492009471 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 395492009472 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 395492009473 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 395492009474 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 395492009475 seryl-tRNA synthetase; Provisional; Region: PRK05431 395492009476 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 395492009477 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme bound...; Region: SerRS_core; cd00770 395492009478 dimer interface [polypeptide binding]; other site 395492009479 active site 395492009480 motif 1; other site 395492009481 motif 2; other site 395492009482 motif 3; other site 395492009483 Survival protein SurE; Region: SurE; cl00448 395492009484 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 395492009485 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 395492009486 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 395492009487 S-adenosylmethionine binding site [chemical binding]; other site 395492009488 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 395492009489 putative peptidoglycan binding site; other site 395492009490 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 395492009491 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 395492009492 putative peptidoglycan binding site; other site 395492009493 Peptidase family M23; Region: Peptidase_M23; pfam01551 395492009494 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 395492009495 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492009496 Preprotein translocase subunit; Region: YajC; cl00806 395492009497 bifunctional preprotein translocase subunit SecD/SecF; Provisional; Region: PRK14726 395492009498 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 395492009499 Protein export membrane protein; Region: SecD_SecF; cl14618 395492009500 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 395492009501 Protein export membrane protein; Region: SecD_SecF; cl14618 395492009502 Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a...; Region: Mth938-like; cd00248 395492009503 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 395492009504 substrate binding pocket [chemical binding]; other site 395492009505 substrate-Mg2+ binding site; other site 395492009506 aspartate-rich region 1; other site 395492009507 aspartate-rich region 2; other site 395492009508 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 395492009509 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492009510 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 395492009511 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 395492009512 Predicted membrane protein (DUF2157); Region: DUF2157; cl10480 395492009513 GDYXXLXY protein; Region: GDYXXLXY; cl02066 395492009514 trigger factor; Provisional; Region: tig; PRK01490 395492009515 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 395492009516 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 395492009517 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 395492009518 B12-binding domain/radical SAM domain protein, MJ_1487 family; Region: B12_SAM_MJ_1487; TIGR04013 395492009519 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 395492009520 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 395492009521 FeS/SAM binding site; other site 395492009522 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 395492009523 putative catalytic site [active] 395492009524 putative metal binding site [ion binding]; other site 395492009525 putative phosphate binding site [ion binding]; other site 395492009526 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 395492009527 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492009528 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395492009529 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 395492009530 hypothetical protein; Reviewed; Region: PRK00024 395492009531 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 395492009532 MPN+ (JAMM) motif; other site 395492009533 Zinc-binding site [ion binding]; other site 395492009534 Methionine Aminopeptidase 1. E.C. 3.4.11.18. Also known as methionyl aminopeptidase and Peptidase M. Catalyzes release of N-terminal amino acids, preferentially methionine, from peptides and arylamides; Region: MetAP1; cd01086 395492009535 active site 395492009536 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492009537 AAA domain; Region: AAA_33; pfam13671 395492009538 Helix-turn-helix domains; Region: HTH; cl00088 395492009539 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 395492009540 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 395492009541 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 395492009542 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 395492009543 Amidase; Region: Amidase; cl11426 395492009544 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395492009545 Coenzyme A binding pocket [chemical binding]; other site 395492009546 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 395492009547 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395492009548 Coenzyme A binding pocket [chemical binding]; other site 395492009549 putative acetyltransferase; Provisional; Region: PRK03624 395492009550 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 395492009551 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 395492009552 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 395492009553 GatB domain; Region: GatB_Yqey; cl11497 395492009554 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395492009555 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 395492009556 Coenzyme A binding pocket [chemical binding]; other site 395492009557 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 395492009558 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395492009559 Coenzyme A binding pocket [chemical binding]; other site 395492009560 NADH ubiquinone oxidoreductase subunit NDUFA12; Region: NDUFA12; cl01534 395492009561 Uncharacterized protein conserved in bacteria (DUF2155); Region: DUF2155; cl01970 395492009562 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 395492009563 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 395492009564 S-adenosylmethionine binding site [chemical binding]; other site 395492009565 Protein of unknown function (DUF2167); Region: DUF2167; cl01938 395492009566 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395492009567 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 395492009568 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 395492009569 ATP-grasp domain; Region: ATP-grasp_4; cl03087 395492009570 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 395492009571 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 395492009572 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 395492009573 carboxyltransferase (CT) interaction site; other site 395492009574 biotinylation site [posttranslational modification]; other site 395492009575 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 395492009576 trimer interface [polypeptide binding]; other site 395492009577 active site 395492009578 dimer interface [polypeptide binding]; other site 395492009579 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 395492009580 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 395492009581 catalytic residues [active] 395492009582 aspartate aminotransferase; Provisional; Region: PRK05764 395492009583 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 395492009584 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492009585 homodimer interface [polypeptide binding]; other site 395492009586 catalytic residue [active] 395492009587 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 395492009588 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 395492009589 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 395492009590 aminotransferase; Validated; Region: PRK09148 395492009591 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 395492009592 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492009593 homodimer interface [polypeptide binding]; other site 395492009594 catalytic residue [active] 395492009595 homoserine dehydrogenase; Provisional; Region: PRK06349 395492009596 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492009597 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 395492009598 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 395492009599 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 395492009600 DHH family; Region: DHH; pfam01368 395492009601 DHHA1 domain; Region: DHHA1; pfam02272 395492009602 Transcription factor IIA, alpha/beta subunit; Region: TFIIA; pfam03153 395492009603 Peptidase M15; Region: Peptidase_M15_3; cl01194 395492009604 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395492009605 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 395492009606 dimer interface [polypeptide binding]; other site 395492009607 active site 395492009608 metal binding site [ion binding]; metal-binding site 395492009609 glutathione binding site [chemical binding]; other site 395492009610 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 395492009611 DNA-binding site [nucleotide binding]; DNA binding site 395492009612 RNA-binding motif; other site 395492009613 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 395492009614 DNA-binding site [nucleotide binding]; DNA binding site 395492009615 RNA-binding motif; other site 395492009616 Uncharacterized ACR, COG1430; Region: DUF192; cl00627 395492009617 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 395492009618 Right handed beta helix region; Region: Beta_helix; pfam13229 395492009619 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 395492009620 Domain of unknown function (DUF3597); Region: DUF3597; pfam12200 395492009621 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 395492009622 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 395492009623 Walker A/P-loop; other site 395492009624 ATP binding site [chemical binding]; other site 395492009625 Q-loop/lid; other site 395492009626 ABC transporter signature motif; other site 395492009627 Walker B; other site 395492009628 D-loop; other site 395492009629 H-loop/switch region; other site 395492009630 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 395492009631 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492009632 dimer interface [polypeptide binding]; other site 395492009633 conserved gate region; other site 395492009634 putative PBP binding loops; other site 395492009635 ABC-ATPase subunit interface; other site 395492009636 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 395492009637 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 395492009638 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492009639 dimer interface [polypeptide binding]; other site 395492009640 conserved gate region; other site 395492009641 putative PBP binding loops; other site 395492009642 ABC-ATPase subunit interface; other site 395492009643 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 395492009644 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 395492009645 substrate binding pocket [chemical binding]; other site 395492009646 membrane-bound complex binding site; other site 395492009647 hinge residues; other site 395492009648 cystathionine beta-lyase; Provisional; Region: PRK05967 395492009649 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 395492009650 homodimer interface [polypeptide binding]; other site 395492009651 substrate-cofactor binding pocket; other site 395492009652 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492009653 catalytic residue [active] 395492009654 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492009655 salicylate hydroxylase; Provisional; Region: PRK06475 395492009656 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492009657 Zinc-finger domain; Region: zf-CHCC; cl01821 395492009658 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395492009659 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395492009660 serine acetyltransferase; Provisional; Region: cysE; PRK11132 395492009661 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 395492009662 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 395492009663 trimer interface [polypeptide binding]; other site 395492009664 active site 395492009665 substrate binding site [chemical binding]; other site 395492009666 CoA binding site [chemical binding]; other site 395492009667 Protein of unknown function (DUF3126); Region: DUF3126; pfam11324 395492009668 Phasin protein; Region: Phasin_2; cl11491 395492009669 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 395492009670 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 395492009671 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 395492009672 Walker A motif; other site 395492009673 ATP binding site [chemical binding]; other site 395492009674 Walker B motif; other site 395492009675 arginine finger; other site 395492009676 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 395492009677 Walker A motif; other site 395492009678 ATP binding site [chemical binding]; other site 395492009679 Walker B motif; other site 395492009680 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 395492009681 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395492009682 putative substrate translocation pore; other site 395492009683 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 395492009684 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 395492009685 HIT family signature motif; other site 395492009686 catalytic residue [active] 395492009687 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395492009688 Protein of unknown function, DUF482; Region: DUF482; pfam04339 395492009689 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_like_3; cd08585 395492009690 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 395492009691 putative active site [active] 395492009692 catalytic site [active] 395492009693 putative metal binding site [ion binding]; other site 395492009694 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 395492009695 homotrimer interaction site [polypeptide binding]; other site 395492009696 putative active site [active] 395492009697 Domain of unknown function (DUF1849); Region: DUF1849; pfam08904 395492009698 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 395492009699 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492009700 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 395492009701 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 395492009702 metal ion-dependent adhesion site (MIDAS); other site 395492009703 5-bromo-4-chloroindolyl phosphate hydrolysis protein; Region: Halogen_Hydrol; cl02059 395492009704 Ribosomal protein S2 (RPS2), involved in formation of the translation initiation complex, where it might contact the messenger RNA and several components of the ribosome. It has been shown that in Escherichia coli RPS2 is essential for the binding of...; Region: RPS2; cd01425 395492009705 rRNA interaction site [nucleotide binding]; other site 395492009706 S8 interaction site; other site 395492009707 putative laminin-1 binding site; other site 395492009708 elongation factor Ts; Provisional; Region: tsf; PRK09377 395492009709 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 395492009710 Elongation factor TS; Region: EF_TS; pfam00889 395492009711 Elongation factor TS; Region: EF_TS; pfam00889 395492009712 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and...; Region: AAK_UMPK-PyrH-Ec; cd04254 395492009713 putative nucleotide binding site [chemical binding]; other site 395492009714 uridine monophosphate binding site [chemical binding]; other site 395492009715 homohexameric interface [polypeptide binding]; other site 395492009716 ribosome recycling factor; Reviewed; Region: frr; PRK00083 395492009717 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are 'recycled' and ready for another round of...; Region: RRF; cd00520 395492009718 hinge region; other site 395492009719 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 395492009720 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 395492009721 catalytic residue [active] 395492009722 putative FPP diphosphate binding site; other site 395492009723 putative FPP binding hydrophobic cleft; other site 395492009724 dimer interface [polypeptide binding]; other site 395492009725 putative IPP diphosphate binding site; other site 395492009726 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 395492009727 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 395492009728 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 395492009729 active site 395492009730 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 395492009731 protein binding site [polypeptide binding]; other site 395492009732 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 395492009733 putative substrate binding region [chemical binding]; other site 395492009734 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 395492009735 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 395492009736 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 395492009737 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 395492009738 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 395492009739 Surface antigen; Region: Bac_surface_Ag; cl03097 395492009740 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 395492009741 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 395492009742 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 395492009743 trimer interface [polypeptide binding]; other site 395492009744 active site 395492009745 UDP-GlcNAc binding site [chemical binding]; other site 395492009746 lipid binding site [chemical binding]; lipid-binding site 395492009747 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 395492009748 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 395492009749 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 395492009750 active site 395492009751 Protein of unknown function (DUF1009); Region: DUF1009; cl09182 395492009752 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 395492009753 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 395492009754 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 395492009755 dimer interface [polypeptide binding]; other site 395492009756 Citrate synthase; Region: Citrate_synt; pfam00285 395492009757 active site 395492009758 citrylCoA binding site [chemical binding]; other site 395492009759 NADH binding [chemical binding]; other site 395492009760 cationic pore residues; other site 395492009761 oxalacetate/citrate binding site [chemical binding]; other site 395492009762 coenzyme A binding site [chemical binding]; other site 395492009763 catalytic triad [active] 395492009764 Competence protein; Region: Competence; cl00471 395492009765 LexA repressor; Validated; Region: PRK00215 395492009766 Helix-turn-helix domains; Region: HTH; cl00088 395492009767 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 395492009768 Catalytic site [active] 395492009769 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 395492009770 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 395492009771 NeuB family; Region: NeuB; cl00496 395492009772 enolase; Provisional; Region: eno; PRK00077 395492009773 Enolase: Enolases are homodimeric enzymes that catalyse the reversible dehydration of 2-phospho-D-glycerate to phosphoenolpyruvate as part of the glycolytic and gluconeogenesis pathways. The reaction is facilitated by the presence of metal ions; Region: enolase; cd03313 395492009774 dimer interface [polypeptide binding]; other site 395492009775 metal binding site [ion binding]; metal-binding site 395492009776 substrate binding pocket [chemical binding]; other site 395492009777 Septum formation initiator; Region: DivIC; cl11433 395492009778 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 395492009779 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 395492009780 tetramer interface [polypeptide binding]; other site 395492009781 TPP-binding site [chemical binding]; other site 395492009782 heterodimer interface [polypeptide binding]; other site 395492009783 phosphorylation loop region [posttranslational modification] 395492009784 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 395492009785 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 395492009786 E3 interaction surface; other site 395492009787 lipoyl attachment site [posttranslational modification]; other site 395492009788 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 395492009789 alpha subunit interface [polypeptide binding]; other site 395492009790 TPP binding site [chemical binding]; other site 395492009791 heterodimer interface [polypeptide binding]; other site 395492009792 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 395492009793 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 395492009794 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 395492009795 E3 interaction surface; other site 395492009796 lipoyl attachment site [posttranslational modification]; other site 395492009797 e3 binding domain; Region: E3_binding; pfam02817 395492009798 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 395492009799 SGNH_hydrolase subfamily, similar to arylesterase (7-aminocephalosporanic acid-deacetylating enzyme) of A. tumefaciens. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of...; Region: SGNH_arylesterase_like; cd01839 395492009800 active site 395492009801 catalytic triad [active] 395492009802 oxyanion hole [active] 395492009803 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 395492009804 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492009805 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395492009806 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 395492009807 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 395492009808 lipoyl synthase; Provisional; Region: PRK05481 395492009809 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 395492009810 FeS/SAM binding site; other site 395492009811 DDE superfamily endonuclease; Region: DDE_4; cl15789 395492009812 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 395492009813 DDE superfamily endonuclease; Region: DDE_4; cl15789 395492009814 topology modulation protein; Reviewed; Region: PRK08118 395492009815 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492009816 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 395492009817 putative coenzyme Q binding site [chemical binding]; other site 395492009818 Competence-damaged protein; Region: CinA; cl00666 395492009819 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 395492009820 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 395492009821 substrate binding site; other site 395492009822 dimer interface; other site 395492009823 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 395492009824 homotrimer interaction site [polypeptide binding]; other site 395492009825 zinc binding site [ion binding]; other site 395492009826 CDP-binding sites; other site 395492009827 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 395492009828 Dihydrouridine synthase (Dus); Region: Dus; pfam01207 395492009829 FMN binding site [chemical binding]; other site 395492009830 active site 395492009831 catalytic residues [active] 395492009832 substrate binding site [chemical binding]; other site 395492009833 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 395492009834 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 395492009835 dimer interface [polypeptide binding]; other site 395492009836 phosphorylation site [posttranslational modification] 395492009837 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 395492009838 ATP binding site [chemical binding]; other site 395492009839 Mg2+ binding site [ion binding]; other site 395492009840 G-X-G motif; other site 395492009841 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 395492009842 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492009843 active site 395492009844 phosphorylation site [posttranslational modification] 395492009845 intermolecular recognition site; other site 395492009846 dimerization interface [polypeptide binding]; other site 395492009847 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 395492009848 Walker A motif; other site 395492009849 ATP binding site [chemical binding]; other site 395492009850 Walker B motif; other site 395492009851 arginine finger; other site 395492009852 Helix-turn-helix domains; Region: HTH; cl00088 395492009853 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 395492009854 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 395492009855 active site 395492009856 catalytic tetrad [active] 395492009857 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 395492009858 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 395492009859 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395492009860 catalytic residue [active] 395492009861 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 395492009862 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 395492009863 Walker A/P-loop; other site 395492009864 ATP binding site [chemical binding]; other site 395492009865 Q-loop/lid; other site 395492009866 ABC transporter signature motif; other site 395492009867 Walker B; other site 395492009868 D-loop; other site 395492009869 H-loop/switch region; other site 395492009870 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 395492009871 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492009872 dimer interface [polypeptide binding]; other site 395492009873 ABC-ATPase subunit interface; other site 395492009874 putative PBP binding loops; other site 395492009875 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492009876 dimer interface [polypeptide binding]; other site 395492009877 conserved gate region; other site 395492009878 putative PBP binding loops; other site 395492009879 ABC-ATPase subunit interface; other site 395492009880 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 395492009881 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 395492009882 substrate binding pocket [chemical binding]; other site 395492009883 membrane-bound complex binding site; other site 395492009884 hinge residues; other site 395492009885 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395492009886 Helix-turn-helix domains; Region: HTH; cl00088 395492009887 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_6; cd08423 395492009888 putative dimerization interface [polypeptide binding]; other site 395492009889 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 395492009890 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 395492009891 dimer interface [polypeptide binding]; other site 395492009892 active site 395492009893 glycine-pyridoxal phosphate binding site [chemical binding]; other site 395492009894 folate binding site [chemical binding]; other site 395492009895 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 395492009896 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 395492009897 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 395492009898 homodimer interface [polypeptide binding]; other site 395492009899 NADP binding site [chemical binding]; other site 395492009900 substrate binding site [chemical binding]; other site 395492009901 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 395492009902 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 395492009903 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 395492009904 putative active site [active] 395492009905 putative substrate binding site [chemical binding]; other site 395492009906 putative cosubstrate binding site; other site 395492009907 catalytic site [active] 395492009908 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 395492009909 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 395492009910 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 395492009911 dimer interface [polypeptide binding]; other site 395492009912 phosphorylation site [posttranslational modification] 395492009913 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 395492009914 ATP binding site [chemical binding]; other site 395492009915 Mg2+ binding site [ion binding]; other site 395492009916 G-X-G motif; other site 395492009917 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 395492009918 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492009919 active site 395492009920 phosphorylation site [posttranslational modification] 395492009921 intermolecular recognition site; other site 395492009922 dimerization interface [polypeptide binding]; other site 395492009923 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 395492009924 Walker A motif; other site 395492009925 ATP binding site [chemical binding]; other site 395492009926 Walker B motif; other site 395492009927 Helix-turn-helix domains; Region: HTH; cl00088 395492009928 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 395492009929 homodimer interface [polypeptide binding]; other site 395492009930 substrate-cofactor binding pocket; other site 395492009931 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492009932 catalytic residue [active] 395492009933 Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others. Hfq binds small RNA molecules called riboregulators that...; Region: Hfq; cd01716 395492009934 Sm1 motif; other site 395492009935 intra - hexamer interaction site; other site 395492009936 inter - hexamer interaction site [polypeptide binding]; other site 395492009937 nucleotide binding pocket [chemical binding]; other site 395492009938 Sm2 motif; other site 395492009939 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 395492009940 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 395492009941 HflX GTPase family; Region: HflX; cd01878 395492009942 G1 box; other site 395492009943 GTP/Mg2+ binding site [chemical binding]; other site 395492009944 Switch I region; other site 395492009945 G2 box; other site 395492009946 G3 box; other site 395492009947 Switch II region; other site 395492009948 G4 box; other site 395492009949 G5 box; other site 395492009950 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 395492009951 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 395492009952 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 395492009953 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 395492009954 nucleoside/Zn binding site; other site 395492009955 dimer interface [polypeptide binding]; other site 395492009956 catalytic motif [active] 395492009957 siroheme synthase; Provisional; Region: cysG; PRK10637 395492009958 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492009959 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 395492009960 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 395492009961 Protein of unknown function (DUF2849); Region: DUF2849; pfam11011 395492009962 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 395492009963 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 395492009964 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 395492009965 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 395492009966 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07494 395492009967 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492009968 Membrane transport protein; Region: Mem_trans; cl09117 395492009969 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 395492009970 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 395492009971 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395492009972 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395492009973 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 395492009974 CsbD-like; Region: CsbD; cl15799 395492009975 Protein of unknown function (DUF3237); Region: DUF3237; cl07905 395492009976 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 395492009977 Helix-turn-helix domains; Region: HTH; cl00088 395492009978 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492009979 dimerization interface [polypeptide binding]; other site 395492009980 hypothetical protein; Provisional; Region: PRK06834 395492009981 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492009982 Protein of unknown function (DUF982); Region: DUF982; pfam06169 395492009983 Protein of unknown function (DUF4242); Region: DUF4242; pfam14026 395492009984 cyclase homology domain; Region: CHD; cd07302 395492009985 nucleotidyl binding site; other site 395492009986 metal binding site [ion binding]; metal-binding site 395492009987 dimer interface [polypeptide binding]; other site 395492009988 Protein of unknown function (DUF982); Region: DUF982; pfam06169 395492009989 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492009990 hypothetical protein; Provisional; Region: PRK06184 395492009991 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 395492009992 Helix-turn-helix domains; Region: HTH; cl00088 395492009993 GAF domain; Region: GAF; cl15785 395492009994 PAS domain; Region: PAS_9; pfam13426 395492009995 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 395492009996 dimer interface [polypeptide binding]; other site 395492009997 phosphorylation site [posttranslational modification] 395492009998 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 395492009999 ATP binding site [chemical binding]; other site 395492010000 Mg2+ binding site [ion binding]; other site 395492010001 G-X-G motif; other site 395492010002 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395492010003 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492010004 active site 395492010005 phosphorylation site [posttranslational modification] 395492010006 intermolecular recognition site; other site 395492010007 dimerization interface [polypeptide binding]; other site 395492010008 Response regulator receiver domain; Region: Response_reg; pfam00072 395492010009 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492010010 active site 395492010011 phosphorylation site [posttranslational modification] 395492010012 intermolecular recognition site; other site 395492010013 dimerization interface [polypeptide binding]; other site 395492010014 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 395492010015 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395492010016 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395492010017 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cl10015 395492010018 homotrimer interaction site [polypeptide binding]; other site 395492010019 putative active site [active] 395492010020 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl15777 395492010021 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395492010022 Helix-turn-helix domains; Region: HTH; cl00088 395492010023 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 395492010024 putative effector binding pocket; other site 395492010025 dimerization interface [polypeptide binding]; other site 395492010026 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 395492010027 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395492010028 Zn binding site [ion binding]; other site 395492010029 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 395492010030 Zn binding site [ion binding]; other site 395492010031 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395492010032 Helix-turn-helix domains; Region: HTH; cl00088 395492010033 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 395492010034 putative effector binding pocket; other site 395492010035 putative dimerization interface [polypeptide binding]; other site 395492010036 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 395492010037 Isochorismatase family; Region: Isochorismatase; pfam00857 395492010038 catalytic triad [active] 395492010039 dimer interface [polypeptide binding]; other site 395492010040 conserved cis-peptide bond; other site 395492010041 Protein of unknown function (DUF1427); Region: DUF1427; cl01771 395492010042 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 395492010043 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 395492010044 active site 395492010045 DoxX; Region: DoxX; cl00976 395492010046 Transmembrane secretion effector; Region: MFS_3; pfam05977 395492010047 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395492010048 putative substrate translocation pore; other site 395492010049 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 395492010050 homotrimer interaction site [polypeptide binding]; other site 395492010051 putative active site [active] 395492010052 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 395492010053 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 395492010054 FAD binding domain; Region: FAD_binding_4; pfam01565 395492010055 cytosine deaminase-like protein; Validated; Region: PRK07583 395492010056 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 395492010057 active site 395492010058 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 395492010059 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 395492010060 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 395492010061 Walker A/P-loop; other site 395492010062 ATP binding site [chemical binding]; other site 395492010063 Q-loop/lid; other site 395492010064 ABC transporter signature motif; other site 395492010065 Walker B; other site 395492010066 D-loop; other site 395492010067 H-loop/switch region; other site 395492010068 NMT1/THI5 like; Region: NMT1; pfam09084 395492010069 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395492010070 Helix-turn-helix domains; Region: HTH; cl00088 395492010071 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492010072 dimerization interface [polypeptide binding]; other site 395492010073 Creatinine amidohydrolase; Region: Creatininase; cl00618 395492010074 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 395492010075 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 395492010076 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395492010077 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492010078 Helix-turn-helix domains; Region: HTH; cl00088 395492010079 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 395492010080 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 395492010081 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395492010082 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492010083 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492010084 dimer interface [polypeptide binding]; other site 395492010085 conserved gate region; other site 395492010086 putative PBP binding loops; other site 395492010087 ABC-ATPase subunit interface; other site 395492010088 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395492010089 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492010090 dimer interface [polypeptide binding]; other site 395492010091 conserved gate region; other site 395492010092 putative PBP binding loops; other site 395492010093 ABC-ATPase subunit interface; other site 395492010094 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395492010095 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395492010096 Walker A/P-loop; other site 395492010097 ATP binding site [chemical binding]; other site 395492010098 Q-loop/lid; other site 395492010099 ABC transporter signature motif; other site 395492010100 Walker B; other site 395492010101 D-loop; other site 395492010102 H-loop/switch region; other site 395492010103 TOBE domain; Region: TOBE_2; cl01440 395492010104 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 395492010105 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 395492010106 putative active site [active] 395492010107 catalytic residue [active] 395492010108 D-mannonate dehydratase [Carbohydrate transport and metabolism]; Region: UxuA; COG1312 395492010109 mannonate dehydratase; Region: uxuA; TIGR00695 395492010110 transcriptional regulator NanR; Provisional; Region: PRK03837 395492010111 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395492010112 DNA-binding site [nucleotide binding]; DNA binding site 395492010113 FCD domain; Region: FCD; cl11656 395492010114 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 395492010115 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 395492010116 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 395492010117 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492010118 dimer interface [polypeptide binding]; other site 395492010119 conserved gate region; other site 395492010120 putative PBP binding loops; other site 395492010121 ABC-ATPase subunit interface; other site 395492010122 D-ala-D-ala transporter subunit; Provisional; Region: PRK09881 395492010123 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 395492010124 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 395492010125 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 395492010126 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395492010127 Walker A/P-loop; other site 395492010128 ATP binding site [chemical binding]; other site 395492010129 Q-loop/lid; other site 395492010130 ABC transporter signature motif; other site 395492010131 Walker B; other site 395492010132 D-loop; other site 395492010133 H-loop/switch region; other site 395492010134 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395492010135 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 395492010136 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395492010137 Walker A/P-loop; other site 395492010138 ATP binding site [chemical binding]; other site 395492010139 Q-loop/lid; other site 395492010140 ABC transporter signature motif; other site 395492010141 Walker B; other site 395492010142 D-loop; other site 395492010143 H-loop/switch region; other site 395492010144 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395492010145 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395492010146 DNA binding site [nucleotide binding] 395492010147 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 395492010148 ligand binding site [chemical binding]; other site 395492010149 dimerization interface [polypeptide binding]; other site 395492010150 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395492010151 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492010152 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 395492010153 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492010154 dimer interface [polypeptide binding]; other site 395492010155 ABC-ATPase subunit interface; other site 395492010156 putative PBP binding loops; other site 395492010157 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492010158 dimer interface [polypeptide binding]; other site 395492010159 conserved gate region; other site 395492010160 putative PBP binding loops; other site 395492010161 ABC-ATPase subunit interface; other site 395492010162 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395492010163 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395492010164 Walker A/P-loop; other site 395492010165 ATP binding site [chemical binding]; other site 395492010166 Q-loop/lid; other site 395492010167 ABC transporter signature motif; other site 395492010168 Walker B; other site 395492010169 D-loop; other site 395492010170 H-loop/switch region; other site 395492010171 TOBE domain; Region: TOBE_2; cl01440 395492010172 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395492010173 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395492010174 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395492010175 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 395492010176 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 395492010177 Walker A/P-loop; other site 395492010178 ATP binding site [chemical binding]; other site 395492010179 Q-loop/lid; other site 395492010180 ABC transporter signature motif; other site 395492010181 Walker B; other site 395492010182 D-loop; other site 395492010183 H-loop/switch region; other site 395492010184 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 395492010185 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 395492010186 FtsX-like permease family; Region: FtsX; cl15850 395492010187 Autoinducer binding domain; Region: Autoind_bind; pfam03472 395492010188 Helix-turn-helix domains; Region: HTH; cl00088 395492010189 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 395492010190 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 395492010191 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 395492010192 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 395492010193 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 395492010194 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 395492010195 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395492010196 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 395492010197 active site 395492010198 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395492010199 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 395492010200 DNA-binding site [nucleotide binding]; DNA binding site 395492010201 FCD domain; Region: FCD; cl11656 395492010202 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 395492010203 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 395492010204 FAD binding pocket [chemical binding]; other site 395492010205 FAD binding motif [chemical binding]; other site 395492010206 phosphate binding motif [ion binding]; other site 395492010207 beta-alpha-beta structure motif; other site 395492010208 NAD binding pocket [chemical binding]; other site 395492010209 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 395492010210 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 395492010211 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 395492010212 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 395492010213 NADP binding site [chemical binding]; other site 395492010214 dimer interface [polypeptide binding]; other site 395492010215 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 395492010216 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 395492010217 Walker A/P-loop; other site 395492010218 ATP binding site [chemical binding]; other site 395492010219 Q-loop/lid; other site 395492010220 ABC transporter signature motif; other site 395492010221 Walker B; other site 395492010222 D-loop; other site 395492010223 H-loop/switch region; other site 395492010224 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 395492010225 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 395492010226 TM-ABC transporter signature motif; other site 395492010227 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 395492010228 TM-ABC transporter signature motif; other site 395492010229 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 395492010230 putative ligand binding site [chemical binding]; other site 395492010231 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 395492010232 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 395492010233 putative ligand binding site [chemical binding]; other site 395492010234 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 395492010235 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 395492010236 Walker A/P-loop; other site 395492010237 ATP binding site [chemical binding]; other site 395492010238 Q-loop/lid; other site 395492010239 ABC transporter signature motif; other site 395492010240 Walker B; other site 395492010241 D-loop; other site 395492010242 H-loop/switch region; other site 395492010243 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 395492010244 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 395492010245 TM-ABC transporter signature motif; other site 395492010246 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 395492010247 TM-ABC transporter signature motif; other site 395492010248 Transcriptional regulators [Transcription]; Region: FadR; COG2186 395492010249 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395492010250 DNA-binding site [nucleotide binding]; DNA binding site 395492010251 FCD domain; Region: FCD; cl11656 395492010252 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 395492010253 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 395492010254 Substrate binding site; other site 395492010255 Mg++ binding site; other site 395492010256 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 395492010257 active site 395492010258 substrate binding site [chemical binding]; other site 395492010259 CoA binding site [chemical binding]; other site 395492010260 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 395492010261 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 395492010262 glutaminase active site [active] 395492010263 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 395492010264 dimer interface [polypeptide binding]; other site 395492010265 active site 395492010266 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 395492010267 dimer interface [polypeptide binding]; other site 395492010268 active site 395492010269 Protein of unknown function (DUF502); Region: DUF502; cl01107 395492010270 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 395492010271 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 395492010272 generic binding surface II; other site 395492010273 ssDNA binding site; other site 395492010274 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 395492010275 ATP binding site [chemical binding]; other site 395492010276 putative Mg++ binding site [ion binding]; other site 395492010277 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 395492010278 nucleotide binding region [chemical binding]; other site 395492010279 ATP-binding site [chemical binding]; other site 395492010280 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 395492010281 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 395492010282 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 395492010283 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 395492010284 ATP binding site [chemical binding]; other site 395492010285 putative Mg++ binding site [ion binding]; other site 395492010286 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 395492010287 nucleotide binding region [chemical binding]; other site 395492010288 ATP-binding site [chemical binding]; other site 395492010289 TRCF domain; Region: TRCF; cl04088 395492010290 OsmC-like protein; Region: OsmC; cl00767 395492010291 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 395492010292 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 395492010293 catalytic residues [active] 395492010294 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 395492010295 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 395492010296 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 395492010297 Hemimethylated DNA-binding protein YccV like; Region: YccV-like; cl01548 395492010298 glutamine synthetase; Provisional; Region: glnA; PRK09469 395492010299 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 395492010300 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 395492010301 Nitrogen regulatory protein P-II; Region: P-II; cl00412 395492010302 Nitrogen regulatory protein P-II; Region: P-II; smart00938 395492010303 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 395492010304 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 395492010305 putative substrate binding site [chemical binding]; other site 395492010306 putative ATP binding site [chemical binding]; other site 395492010307 Protein of unknown function DUF72; Region: DUF72; cl00777 395492010308 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 395492010309 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395492010310 Coenzyme A binding pocket [chemical binding]; other site 395492010311 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 395492010312 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 395492010313 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 395492010314 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 395492010315 SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date...; Region: SSB_OBF; cd04496 395492010316 dimer interface [polypeptide binding]; other site 395492010317 ssDNA binding site [nucleotide binding]; other site 395492010318 tetramer (dimer of dimers) interface [polypeptide binding]; other site 395492010319 MarC family integral membrane protein; Region: MarC; cl00919 395492010320 DNA gyrase subunit A; Validated; Region: PRK05560 395492010321 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 395492010322 CAP-like domain; other site 395492010323 active site 395492010324 primary dimer interface [polypeptide binding]; other site 395492010325 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 395492010326 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 395492010327 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 395492010328 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 395492010329 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 395492010330 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 395492010331 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 395492010332 active site 395492010333 (T/H)XGH motif; other site 395492010334 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 395492010335 active site 395492010336 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 395492010337 active site 395492010338 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 395492010339 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 395492010340 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 395492010341 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 395492010342 OpgC protein; Region: OpgC_C; cl00792 395492010343 Acyltransferase family; Region: Acyl_transf_3; pfam01757 395492010344 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06333 395492010345 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 395492010346 dimer interface [polypeptide binding]; other site 395492010347 active site 395492010348 Helix-turn-helix domains; Region: HTH; cl00088 395492010349 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_9; cd04666 395492010350 nudix motif; other site 395492010351 Bacterial family of Mg++ dependent phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate inositol monophosphate or similar substrates; Region: Bacterial_IMPase_like_2; cd01643 395492010352 active site 395492010353 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 395492010354 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492010355 Walker A/P-loop; other site 395492010356 ATP binding site [chemical binding]; other site 395492010357 Q-loop/lid; other site 395492010358 ABC transporter signature motif; other site 395492010359 Walker B; other site 395492010360 D-loop; other site 395492010361 H-loop/switch region; other site 395492010362 TOBE domain; Region: TOBE_2; cl01440 395492010363 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 395492010364 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492010365 dimer interface [polypeptide binding]; other site 395492010366 conserved gate region; other site 395492010367 putative PBP binding loops; other site 395492010368 ABC-ATPase subunit interface; other site 395492010369 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492010370 dimer interface [polypeptide binding]; other site 395492010371 conserved gate region; other site 395492010372 putative PBP binding loops; other site 395492010373 ABC-ATPase subunit interface; other site 395492010374 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492010375 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 395492010376 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 395492010377 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492010378 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 395492010379 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492010380 active site 395492010381 phosphorylation site [posttranslational modification] 395492010382 intermolecular recognition site; other site 395492010383 dimerization interface [polypeptide binding]; other site 395492010384 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 395492010385 DNA binding site [nucleotide binding] 395492010386 sensory histidine kinase AtoS; Provisional; Region: PRK11360 395492010387 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 395492010388 dimer interface [polypeptide binding]; other site 395492010389 phosphorylation site [posttranslational modification] 395492010390 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 395492010391 ATP binding site [chemical binding]; other site 395492010392 Mg2+ binding site [ion binding]; other site 395492010393 G-X-G motif; other site 395492010394 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 395492010395 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 395492010396 active site 395492010397 metal binding site [ion binding]; metal-binding site 395492010398 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 395492010399 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492010400 Walker A/P-loop; other site 395492010401 ATP binding site [chemical binding]; other site 395492010402 Q-loop/lid; other site 395492010403 ABC transporter signature motif; other site 395492010404 Walker B; other site 395492010405 D-loop; other site 395492010406 H-loop/switch region; other site 395492010407 TOBE domain; Region: TOBE_2; cl01440 395492010408 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 395492010409 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395492010410 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492010411 dimer interface [polypeptide binding]; other site 395492010412 conserved gate region; other site 395492010413 putative PBP binding loops; other site 395492010414 ABC-ATPase subunit interface; other site 395492010415 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395492010416 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492010417 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395492010418 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395492010419 DNA binding site [nucleotide binding] 395492010420 domain linker motif; other site 395492010421 Ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR_like_2; cd06282 395492010422 putative ligand binding site [chemical binding]; other site 395492010423 putative dimerization interface [polypeptide binding]; other site 395492010424 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 395492010425 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 395492010426 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 395492010427 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 395492010428 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 395492010429 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 395492010430 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395492010431 putative substrate translocation pore; other site 395492010432 Arginase family; Region: Arginase; cl00306 395492010433 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 395492010434 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 395492010435 DNA binding site [nucleotide binding] 395492010436 TolB amino-terminal domain; Region: TolB_N; cl00639 395492010437 TPR repeat; Region: TPR_11; pfam13414 395492010438 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395492010439 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395492010440 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492010441 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 395492010442 Cupin domain; Region: Cupin_2; cl09118 395492010443 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 395492010444 classical (c) SDRs; Region: SDR_c; cd05233 395492010445 NAD(P) binding site [chemical binding]; other site 395492010446 active site 395492010447 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 395492010448 Helix-turn-helix domains; Region: HTH; cl00088 395492010449 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 395492010450 dimerization interface [polypeptide binding]; other site 395492010451 substrate binding pocket [chemical binding]; other site 395492010452 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 395492010453 putative catalytic residues [active] 395492010454 Double zinc ribbon; Region: DZR; pfam12773 395492010455 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 395492010456 cyclase homology domain; Region: CHD; cd07302 395492010457 nucleotidyl binding site; other site 395492010458 metal binding site [ion binding]; metal-binding site 395492010459 dimer interface [polypeptide binding]; other site 395492010460 Predicted ATPase [General function prediction only]; Region: COG3899 395492010461 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492010462 Tetratricopeptide repeat; Region: TPR_12; pfam13424 395492010463 Tetratricopeptide repeat; Region: TPR_12; pfam13424 395492010464 CHASE domain; Region: CHASE; cl01369 395492010465 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395492010466 metal binding site [ion binding]; metal-binding site 395492010467 active site 395492010468 I-site; other site 395492010469 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 395492010470 Helix-turn-helix domains; Region: HTH; cl00088 395492010471 Winged helix-turn helix; Region: HTH_29; pfam13551 395492010472 Helix-turn-helix domains; Region: HTH; cl00088 395492010473 Integrase core domain; Region: rve; cl01316 395492010474 Mechanosensitive ion channel; Region: MS_channel; pfam00924 395492010475 Epoxide hydrolase N terminus; Region: EHN; pfam06441 395492010476 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395492010477 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 395492010478 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395492010479 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395492010480 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395492010481 Helix-turn-helix domains; Region: HTH; cl00088 395492010482 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492010483 dimerization interface [polypeptide binding]; other site 395492010484 Protein of unknown function, DUF599; Region: DUF599; cl01575 395492010485 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395492010486 PAS fold; Region: PAS_3; pfam08447 395492010487 putative active site [active] 395492010488 heme pocket [chemical binding]; other site 395492010489 subtilisin-like protease; Provisional; Region: PTZ00262 395492010490 DDE superfamily endonuclease; Region: DDE_4; cl15789 395492010491 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 395492010492 DDE superfamily endonuclease; Region: DDE_4; cl15789 395492010493 Integral membrane protein TerC family; Region: TerC; cl10468 395492010494 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 395492010495 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 395492010496 active site 395492010497 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 395492010498 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 395492010499 active site 395492010500 HIGH motif; other site 395492010501 KMSKS motif; other site 395492010502 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 395492010503 tRNA binding surface [nucleotide binding]; other site 395492010504 anticodon binding site; other site 395492010505 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 395492010506 DNA polymerase III subunit delta'; Validated; Region: PRK09112 395492010507 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492010508 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492010509 thymidylate kinase; Validated; Region: tmk; PRK00698 395492010510 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 395492010511 TMP-binding site; other site 395492010512 ATP-binding site [chemical binding]; other site 395492010513 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 395492010514 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 395492010515 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 395492010516 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 395492010517 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395492010518 metal binding site [ion binding]; metal-binding site 395492010519 active site 395492010520 I-site; other site 395492010521 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395492010522 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395492010523 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395492010524 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395492010525 Helix-turn-helix domains; Region: HTH; cl00088 395492010526 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_1; cd08460 395492010527 putative substrate binding pocket [chemical binding]; other site 395492010528 putative dimerization interface [polypeptide binding]; other site 395492010529 PhnA protein; Region: PhnA; pfam03831 395492010530 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 395492010531 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 395492010532 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 395492010533 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 395492010534 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 395492010535 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 395492010536 SurA N-terminal domain; Region: SurA_N_3; cl07813 395492010537 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 395492010538 PPIC-type PPIASE domain; Region: Rotamase; cl08278 395492010539 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 395492010540 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 395492010541 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 395492010542 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 395492010543 active site 395492010544 ribulose/triose binding site [chemical binding]; other site 395492010545 phosphate binding site [ion binding]; other site 395492010546 substrate (anthranilate) binding pocket [chemical binding]; other site 395492010547 product (indole) binding pocket [chemical binding]; other site 395492010548 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 395492010549 trimer interface [polypeptide binding]; other site 395492010550 dimer interface [polypeptide binding]; other site 395492010551 putative active site [active] 395492010552 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 395492010553 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 395492010554 dimer interface [polypeptide binding]; other site 395492010555 putative functional site; other site 395492010556 putative MPT binding site; other site 395492010557 Predicted methyltransferase [General function prediction only]; Region: COG3897 395492010558 Predicted methyltransferase [General function prediction only]; Region: COG3897 395492010559 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 395492010560 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 395492010561 ATP binding site [chemical binding]; other site 395492010562 Mg++ binding site [ion binding]; other site 395492010563 motif III; other site 395492010564 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 395492010565 nucleotide binding region [chemical binding]; other site 395492010566 ATP-binding site [chemical binding]; other site 395492010567 DbpA RNA binding domain; Region: DbpA; pfam03880 395492010568 CHASE2 domain; Region: CHASE2; cl01732 395492010569 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 395492010570 cyclase homology domain; Region: CHD; cd07302 395492010571 nucleotidyl binding site; other site 395492010572 metal binding site [ion binding]; metal-binding site 395492010573 dimer interface [polypeptide binding]; other site 395492010574 FecR protein; Region: FecR; pfam04773 395492010575 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate...; Region: citrate_synt_like_2; cd06102 395492010576 dimer interface [polypeptide binding]; other site 395492010577 active site 395492010578 coenzyme A binding site [chemical binding]; other site 395492010579 citrylCoA binding site [chemical binding]; other site 395492010580 Citrate synthase; Region: Citrate_synt; pfam00285 395492010581 oxalacetate/citrate binding site [chemical binding]; other site 395492010582 catalytic triad [active] 395492010583 Bacillus subtilis (Bs) citrate synthase CS-I_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). 2MCS catalyzes the...; Region: BsCS-I_like; cd06109 395492010584 dimer interface [polypeptide binding]; other site 395492010585 Citrate synthase; Region: Citrate_synt; pfam00285 395492010586 active site 395492010587 citrylCoA binding site [chemical binding]; other site 395492010588 oxalacetate/citrate binding site [chemical binding]; other site 395492010589 coenzyme A binding site [chemical binding]; other site 395492010590 catalytic triad [active] 395492010591 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 395492010592 putative hydrophobic ligand binding site [chemical binding]; other site 395492010593 CTP synthetase; Validated; Region: pyrG; PRK05380 395492010594 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 395492010595 Catalytic site [active] 395492010596 active site 395492010597 UTP binding site [chemical binding]; other site 395492010598 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 395492010599 active site 395492010600 putative oxyanion hole; other site 395492010601 catalytic triad [active] 395492010602 Preprotein translocase SecG subunit; Region: SecG; cl09123 395492010603 Triosephosphate isomerase (TIM) is a glycolytic enzyme that catalyzes the interconversion of dihydroxyacetone phosphate and D-glyceraldehyde-3-phosphate. The reaction is very efficient and requires neither cofactors nor metal ions. TIM, usually...; Region: TIM; cd00311 395492010604 substrate binding site [chemical binding]; other site 395492010605 dimer interface [polypeptide binding]; other site 395492010606 catalytic triad [active] 395492010607 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 395492010608 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 395492010609 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 395492010610 Mg2+ binding site [ion binding]; other site 395492010611 G-X-G motif; other site 395492010612 TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are; Region: TopoII_Trans_DNA_gyrase; cd00822 395492010613 anchoring element; other site 395492010614 dimer interface [polypeptide binding]; other site 395492010615 ATP binding site [chemical binding]; other site 395492010616 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 395492010617 active site 395492010618 metal binding site [ion binding]; metal-binding site 395492010619 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 395492010620 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 395492010621 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4246 395492010622 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 395492010623 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 395492010624 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395492010625 Coenzyme A binding pocket [chemical binding]; other site 395492010626 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; cl15419 395492010627 Flavin Reductases; Region: FlaRed; cl00801 395492010628 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 395492010629 putative FMN binding site [chemical binding]; other site 395492010630 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 395492010631 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 395492010632 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 395492010633 Threonyl-tRNA synthetase (ThrRS) class II core catalytic domain. ThrRS is a homodimer. It is responsible for the attachment of threonine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ThrRS_core; cd00771 395492010634 active site 395492010635 dimer interface [polypeptide binding]; other site 395492010636 motif 1; other site 395492010637 motif 2; other site 395492010638 motif 3; other site 395492010639 ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: ThrRS_anticodon; cd00860 395492010640 anticodon binding site; other site 395492010641 Protein of unknown function (DUF1697); Region: DUF1697; cl01557 395492010642 Haemolytic domain; Region: Haemolytic; cl00506 395492010643 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 395492010644 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 395492010645 trimerization site [polypeptide binding]; other site 395492010646 active site 395492010647 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 395492010648 GTP cyclohydrolase I; Provisional; Region: PLN03044 395492010649 active site 395492010650 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 395492010651 hypothetical protein; Provisional; Region: PRK10279 395492010652 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 395492010653 nucleophile elbow; other site 395492010654 FOG: CBS domain [General function prediction only]; Region: COG0517 395492010655 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 395492010656 Rhomboid family; Region: Rhomboid; cl11446 395492010657 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5388 395492010658 PAS domain; Region: PAS_5; pfam07310 395492010659 PilZ domain; Region: PilZ; cl01260 395492010660 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 395492010661 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 395492010662 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 395492010663 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 395492010664 Sporulation related domain; Region: SPOR; cl10051 395492010665 Protein of unknown function (DUF1489); Region: DUF1489; cl11570 395492010666 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 395492010667 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 395492010668 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 395492010669 Protein of unknown function, DUF599; Region: DUF599; cl01575 395492010670 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 395492010671 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 395492010672 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 395492010673 DNA binding residues [nucleotide binding] 395492010674 putative dimer interface [polypeptide binding]; other site 395492010675 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 395492010676 MgtE intracellular N domain; Region: MgtE_N; cl15244 395492010677 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 395492010678 Divalent cation transporter; Region: MgtE; cl00786 395492010679 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 395492010680 active site 395492010681 catalytic residues [active] 395492010682 metal binding site [ion binding]; metal-binding site 395492010683 BON domain; Region: BON; cl02771 395492010684 Phospholipid methyltransferase; Region: PEMT; cl00763 395492010685 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 395492010686 EamA-like transporter family; Region: EamA; cl01037 395492010687 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 395492010688 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 395492010689 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 395492010690 ATP-grasp domain; Region: ATP-grasp_4; cl03087 395492010691 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 395492010692 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 395492010693 carboxyltransferase (CT) interaction site; other site 395492010694 biotinylation site [posttranslational modification]; other site 395492010695 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 395492010696 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 395492010697 substrate binding site [chemical binding]; other site 395492010698 catalytic Zn binding site [ion binding]; other site 395492010699 NAD binding site [chemical binding]; other site 395492010700 structural Zn binding site [ion binding]; other site 395492010701 dimer interface [polypeptide binding]; other site 395492010702 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395492010703 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 395492010704 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 395492010705 DoxX; Region: DoxX; cl00976 395492010706 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 395492010707 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 395492010708 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 395492010709 ATP12 chaperone protein; Region: ATP12; cl02228 395492010710 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 395492010711 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 395492010712 motif II; other site 395492010713 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 395492010714 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 395492010715 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 395492010716 active site 395492010717 CrcB-like protein; Region: CRCB; cl09114 395492010718 Reeler-like domain of YcnI and similar proteins; Region: YcnI_like; cd08545 395492010719 Protein of unknown function (DUF461); Region: DUF461; cl01071 395492010720 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 395492010721 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 395492010722 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 395492010723 lipoyl attachment site [posttranslational modification]; other site 395492010724 glycine dehydrogenase; Provisional; Region: PRK05367 395492010725 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 395492010726 tetramer interface [polypeptide binding]; other site 395492010727 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492010728 catalytic residue [active] 395492010729 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 395492010730 tetramer interface [polypeptide binding]; other site 395492010731 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492010732 catalytic residue [active] 395492010733 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 395492010734 Uncharacterized bacterial muramidase containing a glycosyl hydrolase family 25 (GH25) catalytic domain. Endo-N-acetylmuramidases are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis...; Region: GH25_muramidase_1; cd06413 395492010735 active site 395492010736 Flagella basal body rod protein; Region: Flg_bb_rod; cl16924 395492010737 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12632 395492010738 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 395492010739 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 395492010740 Domain of unknown function DUF59; Region: DUF59; cl00941 395492010741 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 395492010742 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 395492010743 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395492010744 catalytic residue [active] 395492010745 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 395492010746 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 395492010747 FeS assembly ATPase SufC; Region: sufC; TIGR01978 395492010748 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 395492010749 Walker A/P-loop; other site 395492010750 ATP binding site [chemical binding]; other site 395492010751 Q-loop/lid; other site 395492010752 ABC transporter signature motif; other site 395492010753 Walker B; other site 395492010754 D-loop; other site 395492010755 H-loop/switch region; other site 395492010756 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 395492010757 putative ABC transporter; Region: ycf24; CHL00085 395492010758 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 395492010759 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 395492010760 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395492010761 catalytic residue [active] 395492010762 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 395492010763 OpgC protein; Region: OpgC_C; cl00792 395492010764 Acyltransferase family; Region: Acyl_transf_3; pfam01757 395492010765 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 395492010766 Uncharacterized protein family (UPF0075); Region: UPF0075; cl04217 395492010767 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 395492010768 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 395492010769 active site 395492010770 HIGH motif; other site 395492010771 dimer interface [polypeptide binding]; other site 395492010772 KMSKS motif; other site 395492010773 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 395492010774 RNA binding surface [nucleotide binding]; other site 395492010775 trehalose synthase; Region: treS_nterm; TIGR02456 395492010776 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 395492010777 active site 395492010778 catalytic site [active] 395492010779 Protein of unknown function; Region: DUF3971; pfam13116 395492010780 AsmA-like C-terminal region; Region: AsmA_2; cl15864 395492010781 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 395492010782 catalytic triad [active] 395492010783 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 395492010784 dinuclear metal binding motif [ion binding]; other site 395492010785 Synaptobrevin; Region: Synaptobrevin; pfam00957 395492010786 Peptidase family M23; Region: Peptidase_M23; pfam01551 395492010787 helicase 45; Provisional; Region: PTZ00424 395492010788 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 395492010789 ATP binding site [chemical binding]; other site 395492010790 Mg++ binding site [ion binding]; other site 395492010791 motif III; other site 395492010792 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 395492010793 nucleotide binding region [chemical binding]; other site 395492010794 ATP-binding site [chemical binding]; other site 395492010795 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 395492010796 nudix motif; other site 395492010797 TfoX N-terminal domain; Region: TfoX_N; cl01167 395492010798 Flavin Reductases; Region: FlaRed; cl00801 395492010799 leucine ABC transporter subunit substrate-binding protein LivK; Provisional; Region: PRK15404 395492010800 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 395492010801 ligand binding site [chemical binding]; other site 395492010802 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 395492010803 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 395492010804 substrate binding site [chemical binding]; other site 395492010805 hexamer interface [polypeptide binding]; other site 395492010806 metal binding site [ion binding]; metal-binding site 395492010807 Predicted secreted protein (DUF2259); Region: DUF2259; cl02309 395492010808 adenylosuccinate lyase; Provisional; Region: PRK07492 395492010809 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 395492010810 tetramer interface [polypeptide binding]; other site 395492010811 active site 395492010812 Low affinity iron permease; Region: Iron_permease; cl12096 395492010813 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 395492010814 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395492010815 putative diguanylate cyclase; Provisional; Region: PRK09776 395492010816 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 395492010817 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395492010818 metal binding site [ion binding]; metal-binding site 395492010819 active site 395492010820 I-site; other site 395492010821 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 395492010822 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 395492010823 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 395492010824 ATP binding site [chemical binding]; other site 395492010825 active site 395492010826 substrate binding site [chemical binding]; other site 395492010827 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 395492010828 RNA 2'-phosphotransferase; Reviewed; Region: PRK00819 395492010829 RNA:NAD 2'-phosphotransferase [Translation, ribosomal structure and biogenesis]; Region: KptA; COG1859 395492010830 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 395492010831 putative active site [active] 395492010832 catalytic triad [active] 395492010833 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 395492010834 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 395492010835 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395492010836 DNA-binding site [nucleotide binding]; DNA binding site 395492010837 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 395492010838 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492010839 homodimer interface [polypeptide binding]; other site 395492010840 catalytic residue [active] 395492010841 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 395492010842 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 395492010843 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), first repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat1; cd02203 395492010844 dimerization interface [polypeptide binding]; other site 395492010845 ATP binding site [chemical binding]; other site 395492010846 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 395492010847 dimerization interface [polypeptide binding]; other site 395492010848 ATP binding site [chemical binding]; other site 395492010849 BolA-like protein; Region: BolA; cl00386 395492010850 Cytochrome c; Region: Cytochrom_C; cl11414 395492010851 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 395492010852 putative GSH binding site [chemical binding]; other site 395492010853 catalytic residues [active] 395492010854 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395492010855 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 395492010856 putative substrate translocation pore; other site 395492010857 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 395492010858 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395492010859 putative substrate translocation pore; other site 395492010860 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 395492010861 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395492010862 Coenzyme A binding pocket [chemical binding]; other site 395492010863 PAP-phosphatase_like domains. PAP-phosphatase is a member of the inositol monophosphatase family, and catalyses the hydrolysis of 3'-phosphoadenosine-5'-phosphate (PAP) to AMP. In Saccharomyces cerevisiae, HAL2 (MET22) is involved in methionine...; Region: PAP_phosphatase; cd01517 395492010864 active site 395492010865 putative lithium-binding site [ion binding]; other site 395492010866 substrate binding site [chemical binding]; other site 395492010867 PAP-phosphatase_like domains. PAP-phosphatase is a member of the inositol monophosphatase family, and catalyses the hydrolysis of 3'-phosphoadenosine-5'-phosphate (PAP) to AMP. In Saccharomyces cerevisiae, HAL2 (MET22) is involved in methionine...; Region: PAP_phosphatase; cd01517 395492010868 active site 395492010869 putative lithium-binding site [ion binding]; other site 395492010870 substrate binding site [chemical binding]; other site 395492010871 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 395492010872 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 395492010873 Ligand Binding Site [chemical binding]; other site 395492010874 Glutaminase; Region: Glutaminase; cl00907 395492010875 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 395492010876 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 395492010877 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 395492010878 RNA binding surface [nucleotide binding]; other site 395492010879 Domain of unknown function DUF87; Region: DUF87; pfam01935 395492010880 HerA helicase [Replication, recombination, and repair]; Region: COG0433 395492010881 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 395492010882 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 395492010883 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 395492010884 Predicted membrane protein [Function unknown]; Region: COG1289 395492010885 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 395492010886 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 395492010887 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395492010888 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395492010889 Coenzyme A binding pocket [chemical binding]; other site 395492010890 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 395492010891 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 395492010892 putative C-terminal domain interface [polypeptide binding]; other site 395492010893 putative GSH binding site (G-site) [chemical binding]; other site 395492010894 putative dimer interface [polypeptide binding]; other site 395492010895 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 395492010896 dimer interface [polypeptide binding]; other site 395492010897 N-terminal domain interface [polypeptide binding]; other site 395492010898 putative substrate binding pocket (H-site) [chemical binding]; other site 395492010899 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 395492010900 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395492010901 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 395492010902 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 395492010903 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: AlaRS_core; cd00673 395492010904 motif 1; other site 395492010905 active site 395492010906 motif 2; other site 395492010907 motif 3; other site 395492010908 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 395492010909 recombinase A; Provisional; Region: recA; PRK09354 395492010910 RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange; Region: recA; cd00983 395492010911 hexamer interface [polypeptide binding]; other site 395492010912 Walker A motif; other site 395492010913 ATP binding site [chemical binding]; other site 395492010914 Walker B motif; other site 395492010915 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 395492010916 YeiC-like sugar kinase. Found in eukaryotes and bacteria, YeiC-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: YeiC_kinase_like; cd01941 395492010917 substrate binding site [chemical binding]; other site 395492010918 ATP binding site [chemical binding]; other site 395492010919 Indigoidine synthase A like protein; Region: Indigoidine_A; cl00983 395492010920 PAS domain S-box; Region: sensory_box; TIGR00229 395492010921 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 395492010922 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395492010923 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 395492010924 dimer interface [polypeptide binding]; other site 395492010925 phosphorylation site [posttranslational modification] 395492010926 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 395492010927 ATP binding site [chemical binding]; other site 395492010928 Mg2+ binding site [ion binding]; other site 395492010929 G-X-G motif; other site 395492010930 Response regulator receiver domain; Region: Response_reg; pfam00072 395492010931 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492010932 active site 395492010933 phosphorylation site [posttranslational modification] 395492010934 intermolecular recognition site; other site 395492010935 dimerization interface [polypeptide binding]; other site 395492010936 Protein of unknown function (DUF1062); Region: DUF1062; cl01786 395492010937 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 395492010938 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 395492010939 catalytic core [active] 395492010940 YcjX-like family, DUF463; Region: DUF463; cl01193 395492010941 hypothetical protein; Provisional; Region: PRK05415 395492010942 Domain of unknown function (DUF697); Region: DUF697; cl12064 395492010943 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 395492010944 catalytic center binding site [active] 395492010945 ATP binding site [chemical binding]; other site 395492010946 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 395492010947 homooctamer interface [polypeptide binding]; other site 395492010948 active site 395492010949 dihydropteroate synthase; Region: DHPS; TIGR01496 395492010950 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 395492010951 substrate binding pocket [chemical binding]; other site 395492010952 dimer interface [polypeptide binding]; other site 395492010953 inhibitor binding site; inhibition site 395492010954 Bacterial protein of unknown function (DUF922); Region: DUF922; cl02415 395492010955 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 395492010956 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 395492010957 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 395492010958 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 395492010959 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 395492010960 catalytic triad [active] 395492010961 conserved cis-peptide bond; other site 395492010962 Predicted kinase [General function prediction only]; Region: COG0645 395492010963 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492010964 active site 395492010965 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 395492010966 motif 1; other site 395492010967 dimer interface [polypeptide binding]; other site 395492010968 active site 395492010969 motif 2; other site 395492010970 motif 3; other site 395492010971 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 395492010972 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 395492010973 GAF domain; Region: GAF; cl15785 395492010974 GAF domain; Region: GAF_2; pfam13185 395492010975 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395492010976 metal binding site [ion binding]; metal-binding site 395492010977 active site 395492010978 I-site; other site 395492010979 Protein of unknown function (DUF330); Region: DUF330; cl01135 395492010980 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 395492010981 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 395492010982 mce related protein; Region: MCE; pfam02470 395492010983 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 395492010984 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 395492010985 Walker A/P-loop; other site 395492010986 ATP binding site [chemical binding]; other site 395492010987 Q-loop/lid; other site 395492010988 ABC transporter signature motif; other site 395492010989 Walker B; other site 395492010990 D-loop; other site 395492010991 H-loop/switch region; other site 395492010992 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 395492010993 anti sigma factor interaction site; other site 395492010994 regulatory phosphorylation site [posttranslational modification]; other site 395492010995 Permease; Region: Permease; cl00510 395492010996 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 395492010997 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 395492010998 active site 395492010999 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395492011000 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 395492011001 putative substrate translocation pore; other site 395492011002 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 395492011003 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 395492011004 putative active site [active] 395492011005 putative metal binding site [ion binding]; other site 395492011006 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 395492011007 catalytic core [active] 395492011008 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 395492011009 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395492011010 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395492011011 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395492011012 Helix-turn-helix domains; Region: HTH; cl00088 395492011013 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 395492011014 FAD binding domain; Region: FAD_binding_4; pfam01565 395492011015 Berberine and berberine like; Region: BBE; pfam08031 395492011016 malic enzyme; Reviewed; Region: PRK12862 395492011017 Malic enzyme, N-terminal domain; Region: malic; pfam00390 395492011018 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 395492011019 putative NAD(P) binding site [chemical binding]; other site 395492011020 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 395492011021 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 395492011022 RNA/DNA hybrid binding site [nucleotide binding]; other site 395492011023 active site 395492011024 Protein of unknown function (DUF2865); Region: DUF2865; pfam11064 395492011025 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 395492011026 putative FMN binding site [chemical binding]; other site 395492011027 putative transporter; Provisional; Region: PRK10504 395492011028 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395492011029 putative substrate translocation pore; other site 395492011030 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 395492011031 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395492011032 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395492011033 dimer interface [polypeptide binding]; other site 395492011034 putative CheW interface [polypeptide binding]; other site 395492011035 NeuB family; Region: NeuB; cl00496 395492011036 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 395492011037 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 395492011038 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 395492011039 NAD synthetase; Provisional; Region: PRK13981 395492011040 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 395492011041 multimer interface [polypeptide binding]; other site 395492011042 active site 395492011043 catalytic triad [active] 395492011044 protein interface 1 [polypeptide binding]; other site 395492011045 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 395492011046 homodimer interface [polypeptide binding]; other site 395492011047 NAD binding pocket [chemical binding]; other site 395492011048 ATP binding pocket [chemical binding]; other site 395492011049 Mg binding site [ion binding]; other site 395492011050 active-site loop [active] 395492011051 Protein of unknown function (DUF1003); Region: DUF1003; cl01831 395492011052 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 395492011053 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 395492011054 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 395492011055 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 395492011056 Walker A/P-loop; other site 395492011057 ATP binding site [chemical binding]; other site 395492011058 Q-loop/lid; other site 395492011059 ABC transporter signature motif; other site 395492011060 Walker B; other site 395492011061 D-loop; other site 395492011062 H-loop/switch region; other site 395492011063 Class-II DAHP synthetase family; Region: DAHP_synth_2; cl03230 395492011064 TadE-like protein; Region: TadE; cl10688 395492011065 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 395492011066 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 395492011067 glutathione reductase; Validated; Region: PRK06116 395492011068 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395492011069 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 395492011070 Acylphosphatase; Region: Acylphosphatase; cl00551 395492011071 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 395492011072 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 395492011073 tetramer (dimer of dimers) interface [polypeptide binding]; other site 395492011074 active site 395492011075 dimer interface [polypeptide binding]; other site 395492011076 phosphoglycolate phosphatase; Provisional; Region: PRK13222 395492011077 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 395492011078 motif II; other site 395492011079 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 395492011080 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 395492011081 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 395492011082 fumarate hydratase; Reviewed; Region: fumC; PRK00485 395492011083 Class II fumarases; Region: Fumarase_classII; cd01362 395492011084 active site 395492011085 tetramer interface [polypeptide binding]; other site 395492011086 VCBS repeat; Region: VCBS_repeat; TIGR01965 395492011087 fumarate hydratase; Provisional; Region: PRK15389 395492011088 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 395492011089 Fumarase C-terminus; Region: Fumerase_C; cl00795 395492011090 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395492011091 metal binding site [ion binding]; metal-binding site 395492011092 active site 395492011093 I-site; other site 395492011094 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 395492011095 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395492011096 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395492011097 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395492011098 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 395492011099 Helix-turn-helix domains; Region: HTH; cl00088 395492011100 Bacterial low temperature requirement A protein (LtrA); Region: LtrA; cl01754 395492011101 Protein of unknown function (DUF971); Region: DUF971; cl01414 395492011102 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 395492011103 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 395492011104 FeS/SAM binding site; other site 395492011105 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 395492011106 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 395492011107 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 395492011108 S-adenosylmethionine binding site [chemical binding]; other site 395492011109 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 395492011110 Periplasmic binding protein TroA_f. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_f; cd01139 395492011111 putative ligand binding residues [chemical binding]; other site 395492011112 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 395492011113 ABC-ATPase subunit interface; other site 395492011114 dimer interface [polypeptide binding]; other site 395492011115 putative PBP binding regions; other site 395492011116 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 395492011117 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 395492011118 Walker A/P-loop; other site 395492011119 ATP binding site [chemical binding]; other site 395492011120 Q-loop/lid; other site 395492011121 ABC transporter signature motif; other site 395492011122 Walker B; other site 395492011123 D-loop; other site 395492011124 H-loop/switch region; other site 395492011125 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 395492011126 Helix-turn-helix domains; Region: HTH; cl00088 395492011127 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 395492011128 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 395492011129 bacterial glycerol kinase 2-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_GK2_bacteria; cd07791 395492011130 putative N- and C-terminal domain interface [polypeptide binding]; other site 395492011131 putative active site [active] 395492011132 putative MgATP binding site [chemical binding]; other site 395492011133 catalytic site [active] 395492011134 metal binding site [ion binding]; metal-binding site 395492011135 putative homotetramer interface [polypeptide binding]; other site 395492011136 putative homodimer interface [polypeptide binding]; other site 395492011137 putative glycerol binding site [chemical binding]; other site 395492011138 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 395492011139 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 395492011140 PYR/PP interface [polypeptide binding]; other site 395492011141 dimer interface [polypeptide binding]; other site 395492011142 TPP binding site [chemical binding]; other site 395492011143 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 395492011144 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 395492011145 TPP-binding site [chemical binding]; other site 395492011146 dimer interface [polypeptide binding]; other site 395492011147 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 395492011148 TM-ABC transporter signature motif; other site 395492011149 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 395492011150 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 395492011151 ligand binding site [chemical binding]; other site 395492011152 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 395492011153 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 395492011154 Walker A/P-loop; other site 395492011155 ATP binding site [chemical binding]; other site 395492011156 Q-loop/lid; other site 395492011157 ABC transporter signature motif; other site 395492011158 Walker B; other site 395492011159 D-loop; other site 395492011160 H-loop/switch region; other site 395492011161 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 395492011162 short chain dehydrogenase; Provisional; Region: PRK06114 395492011163 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492011164 NAD(P) binding site [chemical binding]; other site 395492011165 active site 395492011166 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 395492011167 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492011168 NAD(P) binding site [chemical binding]; other site 395492011169 active site 395492011170 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 395492011171 classical (c) SDRs; Region: SDR_c; cd05233 395492011172 NAD(P) binding site [chemical binding]; other site 395492011173 active site 395492011174 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 395492011175 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 395492011176 GTP binding site; other site 395492011177 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 395492011178 Walker A motif; other site 395492011179 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395492011180 PAS fold; Region: PAS_3; pfam08447 395492011181 putative active site [active] 395492011182 heme pocket [chemical binding]; other site 395492011183 sensor protein ZraS; Provisional; Region: PRK10364 395492011184 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 395492011185 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395492011186 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492011187 active site 395492011188 phosphorylation site [posttranslational modification] 395492011189 intermolecular recognition site; other site 395492011190 dimerization interface [polypeptide binding]; other site 395492011191 circadian clock protein KaiC; Reviewed; Region: PRK09302 395492011192 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492011193 Walker A motif; other site 395492011194 ATP binding site [chemical binding]; other site 395492011195 Walker B motif; other site 395492011196 KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs. A related protein is found in archaea; Region: KaiC; cd01124 395492011197 Walker A motif; other site 395492011198 ATP binding site [chemical binding]; other site 395492011199 Walker B motif; other site 395492011200 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395492011201 Helix-turn-helix domains; Region: HTH; cl00088 395492011202 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 395492011203 putative effector binding pocket; other site 395492011204 putative dimerization interface [polypeptide binding]; other site 395492011205 Cupin domain; Region: Cupin_2; cl09118 395492011206 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 395492011207 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 395492011208 active site 395492011209 catalytic tetrad [active] 395492011210 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 395492011211 maleylacetoacetate isomerase; Region: maiA; TIGR01262 395492011212 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 395492011213 N-terminal domain interface [polypeptide binding]; other site 395492011214 OsmC-like protein; Region: OsmC; cl00767 395492011215 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 395492011216 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 395492011217 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 395492011218 ATP binding site [chemical binding]; other site 395492011219 Mg2+ binding site [ion binding]; other site 395492011220 G-X-G motif; other site 395492011221 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492011222 osmolarity response regulator; Provisional; Region: ompR; PRK09468 395492011223 active site 395492011224 phosphorylation site [posttranslational modification] 395492011225 intermolecular recognition site; other site 395492011226 dimerization interface [polypeptide binding]; other site 395492011227 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 395492011228 DNA binding site [nucleotide binding] 395492011229 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 395492011230 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 395492011231 TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA...; Region: TlpA_like_DipZ_like; cd03012 395492011232 catalytic residues [active] 395492011233 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395492011234 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395492011235 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 395492011236 ligand binding site [chemical binding]; other site 395492011237 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 395492011238 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395492011239 substrate binding pocket [chemical binding]; other site 395492011240 membrane-bound complex binding site; other site 395492011241 hinge residues; other site 395492011242 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 395492011243 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492011244 dimer interface [polypeptide binding]; other site 395492011245 conserved gate region; other site 395492011246 putative PBP binding loops; other site 395492011247 ABC-ATPase subunit interface; other site 395492011248 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 395492011249 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492011250 dimer interface [polypeptide binding]; other site 395492011251 conserved gate region; other site 395492011252 putative PBP binding loops; other site 395492011253 ABC-ATPase subunit interface; other site 395492011254 Usg-like family; Region: Usg; cl11567 395492011255 Predicted integral membrane protein (DUF2270); Region: DUF2270; cl02337 395492011256 Predicted methyltransferase (contains TPR repeat) [General function prediction only]; Region: COG4976 395492011257 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 395492011258 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 395492011259 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 395492011260 C-terminal domain interface [polypeptide binding]; other site 395492011261 GSH binding site (G-site) [chemical binding]; other site 395492011262 dimer interface [polypeptide binding]; other site 395492011263 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 395492011264 N-terminal domain interface [polypeptide binding]; other site 395492011265 dimer interface [polypeptide binding]; other site 395492011266 substrate binding pocket (H-site) [chemical binding]; other site 395492011267 Helix-turn-helix domains; Region: HTH; cl00088 395492011268 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_7; cd08900 395492011269 putative hydrophobic ligand binding site [chemical binding]; other site 395492011270 Protein of unknown function (DUF419); Region: DUF419; cl15265 395492011271 Protein of unknown function (DUF419); Region: DUF419; cl15265 395492011272 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 395492011273 putative hydrophobic ligand binding site [chemical binding]; other site 395492011274 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 395492011275 dimerization interface [polypeptide binding]; other site 395492011276 putative DNA binding site [nucleotide binding]; other site 395492011277 putative Zn2+ binding site [ion binding]; other site 395492011278 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 395492011279 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 395492011280 active site 395492011281 dimer interface [polypeptide binding]; other site 395492011282 non-prolyl cis peptide bond; other site 395492011283 insertion regions; other site 395492011284 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492011285 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 395492011286 NAD(P) binding pocket [chemical binding]; other site 395492011287 A new structural DNA glycosylase; Region: AlkD_like; cd06561 395492011288 active site 395492011289 LysR family transcriptional regulator; Provisional; Region: PRK14997 395492011290 Helix-turn-helix domains; Region: HTH; cl00088 395492011291 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492011292 dimerization interface [polypeptide binding]; other site 395492011293 Porin subfamily; Region: Porin_2; pfam02530 395492011294 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 395492011295 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 395492011296 putative DNA binding site [nucleotide binding]; other site 395492011297 putative Zn2+ binding site [ion binding]; other site 395492011298 Helix-turn-helix domains; Region: HTH; cl00088 395492011299 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 395492011300 putative uracil binding site [chemical binding]; other site 395492011301 putative active site [active] 395492011302 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 395492011303 Catalytic site; other site 395492011304 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 395492011305 dimer interface [polypeptide binding]; other site 395492011306 phosphorylation site [posttranslational modification] 395492011307 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 395492011308 ATP binding site [chemical binding]; other site 395492011309 Mg2+ binding site [ion binding]; other site 395492011310 G-X-G motif; other site 395492011311 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 395492011312 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 395492011313 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 395492011314 putative dimer interface [polypeptide binding]; other site 395492011315 active site pocket [active] 395492011316 putative cataytic base [active] 395492011317 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 395492011318 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 395492011319 Predicted aspartyl protease [General function prediction only]; Region: COG3577 395492011320 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 395492011321 catalytic motif [active] 395492011322 Catalytic residue [active] 395492011323 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395492011324 Helix-turn-helix domains; Region: HTH; cl00088 395492011325 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 395492011326 dimerization interface [polypeptide binding]; other site 395492011327 classical (c) SDRs; Region: SDR_c; cd05233 395492011328 short chain dehydrogenase; Provisional; Region: PRK07041 395492011329 NAD(P) binding site [chemical binding]; other site 395492011330 active site 395492011331 ABC-2 type transporter; Region: ABC2_membrane; cl11417 395492011332 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 395492011333 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492011334 Walker A/P-loop; other site 395492011335 ATP binding site [chemical binding]; other site 395492011336 Q-loop/lid; other site 395492011337 ABC transporter signature motif; other site 395492011338 Walker B; other site 395492011339 D-loop; other site 395492011340 H-loop/switch region; other site 395492011341 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 395492011342 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 395492011343 inhibitor binding site; inhibition site 395492011344 active site 395492011345 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 395492011346 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 395492011347 active site 395492011348 catalytic tetrad [active] 395492011349 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395492011350 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492011351 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 395492011352 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 395492011353 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 395492011354 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; cl15381 395492011355 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395492011356 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395492011357 Walker A/P-loop; other site 395492011358 ATP binding site [chemical binding]; other site 395492011359 Q-loop/lid; other site 395492011360 ABC transporter signature motif; other site 395492011361 Walker B; other site 395492011362 D-loop; other site 395492011363 H-loop/switch region; other site 395492011364 TOBE domain; Region: TOBE_2; cl01440 395492011365 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492011366 dimer interface [polypeptide binding]; other site 395492011367 conserved gate region; other site 395492011368 putative PBP binding loops; other site 395492011369 ABC-ATPase subunit interface; other site 395492011370 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 395492011371 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492011372 dimer interface [polypeptide binding]; other site 395492011373 conserved gate region; other site 395492011374 putative PBP binding loops; other site 395492011375 ABC-ATPase subunit interface; other site 395492011376 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395492011377 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492011378 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395492011379 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395492011380 DNA binding site [nucleotide binding] 395492011381 domain linker motif; other site 395492011382 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 395492011383 ligand binding site [chemical binding]; other site 395492011384 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage...; Region: Peptidase_C39_like; cl00296 395492011385 putative active site [active] 395492011386 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 395492011387 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 395492011388 ATP-grasp domain; Region: ATP-grasp_4; cl03087 395492011389 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492011390 AAA domain; Region: AAA_28; pfam13521 395492011391 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 395492011392 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 395492011393 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395492011394 Predicted acetyltransferase [General function prediction only]; Region: COG3153 395492011395 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395492011396 Coenzyme A binding pocket [chemical binding]; other site 395492011397 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 395492011398 active site 395492011399 catalytic triad [active] 395492011400 dimer interface [polypeptide binding]; other site 395492011401 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492011402 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 395492011403 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 395492011404 Helix-turn-helix domain; Region: HTH_18; pfam12833 395492011405 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 395492011406 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395492011407 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 395492011408 PAS fold; Region: PAS_4; pfam08448 395492011409 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395492011410 putative active site [active] 395492011411 heme pocket [chemical binding]; other site 395492011412 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 395492011413 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 395492011414 putative acyl-acceptor binding pocket; other site 395492011415 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 395492011416 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH_like1; cd08266 395492011417 putative NAD(P) binding site [chemical binding]; other site 395492011418 structural Zn binding site [ion binding]; other site 395492011419 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06501 395492011420 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 395492011421 dimer interface [polypeptide binding]; other site 395492011422 active site 395492011423 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06519 395492011424 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 395492011425 active site 395492011426 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 395492011427 active site 2 [active] 395492011428 active site 1 [active] 395492011429 Phosphopantetheine attachment site; Region: PP-binding; cl09936 395492011430 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 395492011431 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 395492011432 ligand binding site [chemical binding]; other site 395492011433 flexible hinge region; other site 395492011434 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 395492011435 putative switch regulator; other site 395492011436 non-specific DNA interactions [nucleotide binding]; other site 395492011437 DNA binding site [nucleotide binding] 395492011438 sequence specific DNA binding site [nucleotide binding]; other site 395492011439 putative cAMP binding site [chemical binding]; other site 395492011440 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 395492011441 CobD/Cbib protein; Region: CobD_Cbib; cl00561 395492011442 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 395492011443 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 395492011444 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492011445 homodimer interface [polypeptide binding]; other site 395492011446 catalytic residue [active] 395492011447 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 395492011448 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 395492011449 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 395492011450 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 395492011451 NH_hydro_CaPnhB: A subgroup of nucleoside hydrolases similar to Corynebacterium ammoniagenes Purine/pyrimidine nucleoside hydrolase (pnhB). Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These...; Region: nuc_hydro_CaPnhB; cd02650 395492011452 active site 395492011453 Cobalamin synthesis G C-terminus; Region: CbiG_C; cl12133 395492011454 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 395492011455 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 395492011456 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 395492011457 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 395492011458 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 395492011459 non-specific DNA binding site [nucleotide binding]; other site 395492011460 salt bridge; other site 395492011461 sequence-specific DNA binding site [nucleotide binding]; other site 395492011462 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 395492011463 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492011464 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492011465 Walker A motif; other site 395492011466 ATP binding site [chemical binding]; other site 395492011467 Walker B motif; other site 395492011468 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 395492011469 CobN/Magnesium Chelatase; Region: CobN-Mg_chel; pfam02514 395492011470 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 395492011471 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 395492011472 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 395492011473 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492011474 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 395492011475 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 395492011476 homotrimer interface [polypeptide binding]; other site 395492011477 Walker A motif; other site 395492011478 GTP binding site [chemical binding]; other site 395492011479 Walker B motif; other site 395492011480 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 395492011481 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 395492011482 Cl- selectivity filter; other site 395492011483 Cl- binding residues [ion binding]; other site 395492011484 pore gating glutamate residue; other site 395492011485 dimer interface [polypeptide binding]; other site 395492011486 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 395492011487 gluconate 5-dehydrogenase; Provisional; Region: PRK06124 395492011488 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492011489 NAD(P) binding site [chemical binding]; other site 395492011490 active site 395492011491 cobyric acid synthase; Provisional; Region: PRK00784 395492011492 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492011493 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492011494 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 395492011495 catalytic triad [active] 395492011496 NMT1-like family; Region: NMT1_2; cl15260 395492011497 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 395492011498 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 395492011499 Helix-turn-helix domains; Region: HTH; cl00088 395492011500 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492011501 dimerization interface [polypeptide binding]; other site 395492011502 LysE type translocator; Region: LysE; cl00565 395492011503 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 395492011504 Helix-turn-helix domains; Region: HTH; cl00088 395492011505 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492011506 dimerization interface [polypeptide binding]; other site 395492011507 transcription elongation factor regulatory protein; Validated; Region: PRK06342 395492011508 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 395492011509 MgtC family; Region: MgtC; pfam02308 395492011510 Protein of unknwon function (DUF3008); Region: DUF3008; pfam11450 395492011511 Protein of unknown function (DUF2945); Region: DUF2945; pfam11160 395492011512 Uncharacterized protein conserved in bacteria (DUF2171); Region: DUF2171; cl01558 395492011513 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 395492011514 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 395492011515 conserved cys residue [active] 395492011516 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395492011517 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395492011518 Response regulator receiver domain; Region: Response_reg; pfam00072 395492011519 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492011520 active site 395492011521 phosphorylation site [posttranslational modification] 395492011522 intermolecular recognition site; other site 395492011523 dimerization interface [polypeptide binding]; other site 395492011524 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492011525 active site 395492011526 phosphorylation site [posttranslational modification] 395492011527 intermolecular recognition site; other site 395492011528 dimerization interface [polypeptide binding]; other site 395492011529 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395492011530 metal binding site [ion binding]; metal-binding site 395492011531 active site 395492011532 I-site; other site 395492011533 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395492011534 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 395492011535 active site 395492011536 phosphorylation site [posttranslational modification] 395492011537 intermolecular recognition site; other site 395492011538 dimerization interface [polypeptide binding]; other site 395492011539 Response regulator receiver domain; Region: Response_reg; pfam00072 395492011540 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492011541 active site 395492011542 phosphorylation site [posttranslational modification] 395492011543 intermolecular recognition site; other site 395492011544 dimerization interface [polypeptide binding]; other site 395492011545 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395492011546 Helix-turn-helix domains; Region: HTH; cl00088 395492011547 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 395492011548 DinB superfamily; Region: DinB_2; pfam12867 395492011549 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 395492011550 dimerization interface [polypeptide binding]; other site 395492011551 putative DNA binding site [nucleotide binding]; other site 395492011552 putative Zn2+ binding site [ion binding]; other site 395492011553 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cl00200 395492011554 amphipathic channel; other site 395492011555 Asn-Pro-Ala signature motifs; other site 395492011556 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 395492011557 ArsC family; Region: ArsC; pfam03960 395492011558 catalytic residues [active] 395492011559 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 395492011560 Mechanosensitive ion channel; Region: MS_channel; pfam00924 395492011561 Bacterial protein of unknown function (DUF924); Region: DUF924; cl01561 395492011562 Response regulator receiver domain; Region: Response_reg; pfam00072 395492011563 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492011564 active site 395492011565 phosphorylation site [posttranslational modification] 395492011566 intermolecular recognition site; other site 395492011567 dimerization interface [polypeptide binding]; other site 395492011568 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 395492011569 Histidine kinase; Region: HisKA_2; cl06527 395492011570 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 395492011571 ATP binding site [chemical binding]; other site 395492011572 Mg2+ binding site [ion binding]; other site 395492011573 G-X-G motif; other site 395492011574 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395492011575 putative transporter; Provisional; Region: PRK10504 395492011576 putative substrate translocation pore; other site 395492011577 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 395492011578 dihydroxyacetone kinase, ATP-dependent; Region: dak_ATP; TIGR02361 395492011579 DAK2 domain; Region: Dak2; cl03685 395492011580 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395492011581 Acetyl esterase (deacetylase) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3458 395492011582 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 395492011583 S-adenosylmethionine binding site [chemical binding]; other site 395492011584 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 395492011585 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 395492011586 FAD binding pocket [chemical binding]; other site 395492011587 FAD binding motif [chemical binding]; other site 395492011588 phosphate binding motif [ion binding]; other site 395492011589 NAD binding pocket [chemical binding]; other site 395492011590 Helix-turn-helix domains; Region: HTH; cl00088 395492011591 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_23; cd04682 395492011592 nudix motif; other site 395492011593 Protein of unknown function (DUF3095); Region: DUF3095; pfam11294 395492011594 OsmC-like protein; Region: OsmC; cl00767 395492011595 CAP-Gly domain; Region: CAP_GLY; cl08315 395492011596 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3921 395492011597 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 395492011598 Cache domain; Region: Cache_2; cl07034 395492011599 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395492011600 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395492011601 dimer interface [polypeptide binding]; other site 395492011602 putative CheW interface [polypeptide binding]; other site 395492011603 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 395492011604 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 395492011605 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 395492011606 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5267 395492011607 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 395492011608 Protein of unknown function, DUF486; Region: DUF486; cl01236 395492011609 RDD family; Region: RDD; cl00746 395492011610 putative sialic acid transporter; Region: 2A0112; TIGR00891 395492011611 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395492011612 putative substrate translocation pore; other site 395492011613 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 395492011614 S-adenosylmethionine binding site [chemical binding]; other site 395492011615 NmrA (a transcriptional regulator) and HSCARG (an NADPH sensor) like proteins, atypical (a) SDRs; Region: NmrA_like_SDR_a; cd05251 395492011616 NmrA-like family; Region: NmrA; pfam05368 395492011617 NADP binding site [chemical binding]; other site 395492011618 active site 395492011619 regulatory binding site [polypeptide binding]; other site 395492011620 LysR family transcriptional regulator; Provisional; Region: PRK14997 395492011621 Helix-turn-helix domains; Region: HTH; cl00088 395492011622 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 395492011623 putative effector binding pocket; other site 395492011624 dimerization interface [polypeptide binding]; other site 395492011625 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 395492011626 Sulfate transporter family; Region: Sulfate_transp; cl15842 395492011627 Sulfate transporter family; Region: Sulfate_transp; cl15842 395492011628 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 395492011629 Response regulator receiver domain; Region: Response_reg; pfam00072 395492011630 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492011631 active site 395492011632 phosphorylation site [posttranslational modification] 395492011633 intermolecular recognition site; other site 395492011634 dimerization interface [polypeptide binding]; other site 395492011635 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 395492011636 cyclase homology domain; Region: CHD; cd07302 395492011637 nucleotidyl binding site; other site 395492011638 metal binding site [ion binding]; metal-binding site 395492011639 dimer interface [polypeptide binding]; other site 395492011640 excinuclease ABC subunit B; Provisional; Region: PRK05298 395492011641 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 395492011642 ATP binding site [chemical binding]; other site 395492011643 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 395492011644 nucleotide binding region [chemical binding]; other site 395492011645 ATP-binding site [chemical binding]; other site 395492011646 Ultra-violet resistance protein B; Region: UvrB; pfam12344 395492011647 UvrB/uvrC motif; Region: UVR; pfam02151 395492011648 Protein of unknown function DUF262; Region: DUF262; cl14890 395492011649 Divergent AAA domain; Region: AAA_4; pfam04326 395492011650 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395492011651 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 395492011652 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395492011653 Coenzyme A binding pocket [chemical binding]; other site 395492011654 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 395492011655 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 395492011656 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 395492011657 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 395492011658 Ca2+ binding site [ion binding]; other site 395492011659 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 395492011660 Ca2+ binding site [ion binding]; other site 395492011661 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 395492011662 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 395492011663 Ca2+ binding site [ion binding]; other site 395492011664 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 395492011665 Ca2+ binding site [ion binding]; other site 395492011666 Protein of unknown function (DUF3828); Region: DUF3828; pfam12883 395492011667 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 395492011668 DNA-binding site [nucleotide binding]; DNA binding site 395492011669 RNA-binding motif; other site 395492011670 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 395492011671 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 395492011672 FMN binding site [chemical binding]; other site 395492011673 active site 395492011674 catalytic residues [active] 395492011675 substrate binding site [chemical binding]; other site 395492011676 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 395492011677 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 395492011678 protein binding site [polypeptide binding]; other site 395492011679 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 395492011680 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395492011681 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 395492011682 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395492011683 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 395492011684 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 395492011685 dimer interface [polypeptide binding]; other site 395492011686 phosphorylation site [posttranslational modification] 395492011687 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 395492011688 ATP binding site [chemical binding]; other site 395492011689 Mg2+ binding site [ion binding]; other site 395492011690 G-X-G motif; other site 395492011691 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 395492011692 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492011693 active site 395492011694 phosphorylation site [posttranslational modification] 395492011695 intermolecular recognition site; other site 395492011696 dimerization interface [polypeptide binding]; other site 395492011697 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 395492011698 DNA binding site [nucleotide binding] 395492011699 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 395492011700 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 395492011701 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492011702 Walker A/P-loop; other site 395492011703 ATP binding site [chemical binding]; other site 395492011704 Q-loop/lid; other site 395492011705 ABC transporter signature motif; other site 395492011706 Walker B; other site 395492011707 D-loop; other site 395492011708 H-loop/switch region; other site 395492011709 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 395492011710 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 395492011711 Helix-turn-helix domains; Region: HTH; cl00088 395492011712 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 395492011713 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 395492011714 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395492011715 Coenzyme A binding pocket [chemical binding]; other site 395492011716 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492011717 AAA domain; Region: AAA_18; pfam13238 395492011718 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 395492011719 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 395492011720 putative DNA binding site [nucleotide binding]; other site 395492011721 putative Zn2+ binding site [ion binding]; other site 395492011722 Helix-turn-helix domains; Region: HTH; cl00088 395492011723 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 395492011724 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 395492011725 ANP binding site [chemical binding]; other site 395492011726 Substrate Binding Site II [chemical binding]; other site 395492011727 Substrate Binding Site I [chemical binding]; other site 395492011728 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395492011729 Helix-turn-helix domains; Region: HTH; cl00088 395492011730 WHG domain; Region: WHG; pfam13305 395492011731 Leucine carboxyl methyltransferase; Region: LCM; cl01306 395492011732 UbiA prenyltransferase family; Region: UbiA; cl00337 395492011733 Predicted periplasmic protein [Function unknown]; Region: COG3698 395492011734 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 395492011735 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395492011736 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395492011737 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 395492011738 diiron binding motif [ion binding]; other site 395492011739 LysE type translocator; Region: LysE; cl00565 395492011740 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 395492011741 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492011742 Walker A/P-loop; other site 395492011743 ATP binding site [chemical binding]; other site 395492011744 Q-loop/lid; other site 395492011745 ABC transporter signature motif; other site 395492011746 Walker B; other site 395492011747 D-loop; other site 395492011748 H-loop/switch region; other site 395492011749 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 395492011750 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 395492011751 dimer interface [polypeptide binding]; other site 395492011752 dihydrodipicolinate reductase; Provisional; Region: PRK00048 395492011753 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492011754 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 395492011755 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 395492011756 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492011757 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 395492011758 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395492011759 Coenzyme A binding pocket [chemical binding]; other site 395492011760 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 395492011761 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395492011762 Helix-turn-helix domains; Region: HTH; cl00088 395492011763 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 395492011764 substrate binding pocket [chemical binding]; other site 395492011765 dimerization interface [polypeptide binding]; other site 395492011766 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 395492011767 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395492011768 catalytic residue [active] 395492011769 NlpC/P60 family; Region: NLPC_P60; cl11438 395492011770 K+ potassium transporter; Region: K_trans; cl15781 395492011771 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 395492011772 Intradiol dioxygenase supgroup. Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. They break the catechol C1-C2 bond and utilize Fe3+, as opposed to the...; Region: intradiol_dioxygenase_like; cd03457 395492011773 putative active site [active] 395492011774 Right handed beta helix region; Region: Beta_helix; pfam13229 395492011775 Periplasmic copper-binding protein (NosD); Region: NosD; pfam05048 395492011776 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 395492011777 FtsX-like permease family; Region: FtsX; cl15850 395492011778 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 395492011779 FtsX-like permease family; Region: FtsX; cl15850 395492011780 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 395492011781 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 395492011782 Walker A/P-loop; other site 395492011783 ATP binding site [chemical binding]; other site 395492011784 Q-loop/lid; other site 395492011785 ABC transporter signature motif; other site 395492011786 Walker B; other site 395492011787 D-loop; other site 395492011788 H-loop/switch region; other site 395492011789 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 395492011790 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395492011791 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395492011792 Helix-turn-helix domain; Region: HTH_18; pfam12833 395492011793 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395492011794 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 395492011795 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 395492011796 Heme-copper oxidase subunit III subfamily. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane; Region: Heme_Cu_Oxidase_III_1; cd02864 395492011797 Subunit I/III interface [polypeptide binding]; other site 395492011798 Heme-copper oxidase subunit III subfamily. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane; Region: Heme_Cu_Oxidase_III_2; cd02865 395492011799 Subunit I/III interface [polypeptide binding]; other site 395492011800 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 395492011801 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 395492011802 D-pathway; other site 395492011803 Low-spin heme binding site [chemical binding]; other site 395492011804 Putative water exit pathway; other site 395492011805 Binuclear center (active site) [active] 395492011806 K-pathway; other site 395492011807 Putative proton exit pathway; other site 395492011808 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 395492011809 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 395492011810 Cytochrome c; Region: Cytochrom_C; cl11414 395492011811 Uncharacterized protein family (UPF0160); Region: UPF0160; cl01749 395492011812 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 395492011813 nucleotide binding site/active site [active] 395492011814 HIT family signature motif; other site 395492011815 catalytic residue [active] 395492011816 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 395492011817 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 395492011818 Walker A/P-loop; other site 395492011819 ATP binding site [chemical binding]; other site 395492011820 Q-loop/lid; other site 395492011821 ABC transporter signature motif; other site 395492011822 Walker B; other site 395492011823 D-loop; other site 395492011824 H-loop/switch region; other site 395492011825 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 395492011826 ABC-ATPase subunit interface; other site 395492011827 dimer interface [polypeptide binding]; other site 395492011828 putative PBP binding regions; other site 395492011829 Metal binding protein TroA_a. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and...; Region: TroA_a; cd01148 395492011830 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 395492011831 putative ligand binding residues [chemical binding]; other site 395492011832 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 395492011833 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 395492011834 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 395492011835 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 395492011836 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 395492011837 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 395492011838 PYR/PP interface [polypeptide binding]; other site 395492011839 dimer interface [polypeptide binding]; other site 395492011840 TPP binding site [chemical binding]; other site 395492011841 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 395492011842 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 395492011843 TPP-binding site [chemical binding]; other site 395492011844 dimer interface [polypeptide binding]; other site 395492011845 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 395492011846 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492011847 active site 395492011848 phosphorylation site [posttranslational modification] 395492011849 intermolecular recognition site; other site 395492011850 dimerization interface [polypeptide binding]; other site 395492011851 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 395492011852 DNA binding site [nucleotide binding] 395492011853 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395492011854 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 395492011855 ATP binding site [chemical binding]; other site 395492011856 Mg2+ binding site [ion binding]; other site 395492011857 G-X-G motif; other site 395492011858 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 395492011859 nucleotide binding site [chemical binding]; other site 395492011860 SulA interaction site; other site 395492011861 VCBS repeat; Region: VCBS_repeat; TIGR01965 395492011862 VCBS repeat; Region: VCBS_repeat; TIGR01965 395492011863 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 395492011864 atypical (a) SDRs, subgroup 7; Region: SDR_a7; cd05262 395492011865 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395492011866 putative NAD(P) binding site [chemical binding]; other site 395492011867 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 395492011868 putative hydrophobic ligand binding site [chemical binding]; other site 395492011869 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 395492011870 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 395492011871 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 395492011872 potential catalytic triad [active] 395492011873 conserved cys residue [active] 395492011874 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395492011875 DNA binding site [nucleotide binding] 395492011876 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 395492011877 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 395492011878 putative ligand binding site [chemical binding]; other site 395492011879 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 395492011880 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 395492011881 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 395492011882 [2Fe-2S] cluster binding site [ion binding]; other site 395492011883 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 395492011884 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395492011885 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 395492011886 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395492011887 metal binding site [ion binding]; metal-binding site 395492011888 active site 395492011889 I-site; other site 395492011890 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 395492011891 Domain of unknown function (DUF1987); Region: DUF1987; pfam09345 395492011892 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492011893 active site 395492011894 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 395492011895 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 395492011896 S-adenosylmethionine binding site [chemical binding]; other site 395492011897 Cache domain; Region: Cache_1; pfam02743 395492011898 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 395492011899 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 395492011900 dimerization interface [polypeptide binding]; other site 395492011901 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 395492011902 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 395492011903 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5381 395492011904 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 395492011905 anti sigma factor interaction site; other site 395492011906 regulatory phosphorylation site [posttranslational modification]; other site 395492011907 mycofactocin system transcriptional regulator; Region: mycofact_TetR; TIGR03968 395492011908 Helix-turn-helix domains; Region: HTH; cl00088 395492011909 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 395492011910 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR1; cd08267 395492011911 putative NAD(P) binding site [chemical binding]; other site 395492011912 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 395492011913 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 395492011914 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 395492011915 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 395492011916 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395492011917 PAS domain; Region: PAS_9; pfam13426 395492011918 putative active site [active] 395492011919 heme pocket [chemical binding]; other site 395492011920 PAS fold; Region: PAS_7; pfam12860 395492011921 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395492011922 metal binding site [ion binding]; metal-binding site 395492011923 active site 395492011924 I-site; other site 395492011925 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 395492011926 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492011927 Walker A/P-loop; other site 395492011928 ATP binding site [chemical binding]; other site 395492011929 AAA domain; Region: AAA_21; pfam13304 395492011930 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 395492011931 Transposase; Region: DEDD_Tnp_IS110; pfam01548 395492011932 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 395492011933 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395492011934 Helix-turn-helix domains; Region: HTH; cl00088 395492011935 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 395492011936 putative effector binding pocket; other site 395492011937 putative dimerization interface [polypeptide binding]; other site 395492011938 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 395492011939 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH3; cd08287 395492011940 catalytic Zn binding site [ion binding]; other site 395492011941 NAD(P) binding site [chemical binding]; other site 395492011942 structural Zn binding site [ion binding]; other site 395492011943 ribonucleoside transporter; Reviewed; Region: nepI; PRK10213 395492011944 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395492011945 putative substrate translocation pore; other site 395492011946 cyclase homology domain; Region: CHD; cd07302 395492011947 nucleotidyl binding site; other site 395492011948 metal binding site [ion binding]; metal-binding site 395492011949 dimer interface [polypeptide binding]; other site 395492011950 TolB amino-terminal domain; Region: TolB_N; cl00639 395492011951 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 395492011952 TPR motif; other site 395492011953 binding surface 395492011954 TPR repeat; Region: TPR_11; pfam13414 395492011955 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 395492011956 TPR motif; other site 395492011957 binding surface 395492011958 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cl01109 395492011959 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 395492011960 Beta-galactosidase; Region: Glyco_hydro_42; cl03154 395492011961 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 395492011962 Beta-galactosidase C-terminal domain; Region: Glyco_hydro_42C; pfam08533 395492011963 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395492011964 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395492011965 Walker A/P-loop; other site 395492011966 ATP binding site [chemical binding]; other site 395492011967 Q-loop/lid; other site 395492011968 ABC transporter signature motif; other site 395492011969 Walker B; other site 395492011970 D-loop; other site 395492011971 H-loop/switch region; other site 395492011972 TOBE domain; Region: TOBE_2; cl01440 395492011973 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395492011974 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492011975 dimer interface [polypeptide binding]; other site 395492011976 conserved gate region; other site 395492011977 putative PBP binding loops; other site 395492011978 ABC-ATPase subunit interface; other site 395492011979 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 395492011980 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492011981 dimer interface [polypeptide binding]; other site 395492011982 conserved gate region; other site 395492011983 putative PBP binding loops; other site 395492011984 ABC-ATPase subunit interface; other site 395492011985 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 395492011986 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395492011987 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492011988 Helix-turn-helix domains; Region: HTH; cl00088 395492011989 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 395492011990 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 395492011991 Cupin domain; Region: Cupin_2; cl09118 395492011992 Domain of unknown function (DUF4168); Region: DUF4168; pfam13767 395492011993 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 395492011994 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 395492011995 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395492011996 DNA-binding site [nucleotide binding]; DNA binding site 395492011997 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 395492011998 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492011999 homodimer interface [polypeptide binding]; other site 395492012000 catalytic residue [active] 395492012001 Response regulator receiver domain; Region: Response_reg; pfam00072 395492012002 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492012003 active site 395492012004 phosphorylation site [posttranslational modification] 395492012005 intermolecular recognition site; other site 395492012006 dimerization interface [polypeptide binding]; other site 395492012007 CHASE4 domain; Region: CHASE4; cl01308 395492012008 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 395492012009 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 395492012010 dimer interface [polypeptide binding]; other site 395492012011 phosphorylation site [posttranslational modification] 395492012012 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 395492012013 ATP binding site [chemical binding]; other site 395492012014 Mg2+ binding site [ion binding]; other site 395492012015 G-X-G motif; other site 395492012016 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 395492012017 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395492012018 Coenzyme A binding pocket [chemical binding]; other site 395492012019 Transposase; Region: DEDD_Tnp_IS110; pfam01548 395492012020 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 395492012021 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 395492012022 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 395492012023 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 395492012024 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 395492012025 active site 395492012026 metal binding site [ion binding]; metal-binding site 395492012027 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 395492012028 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 395492012029 active site 395492012030 Glycerophosphodiester phosphodiesterase domain of Agrobacterium tumefaciens and similar proteins; Region: GDPD_AtGDE_like; cd08566 395492012031 putative active site [active] 395492012032 catalytic site [active] 395492012033 putative metal binding site [ion binding]; other site 395492012034 oligomer interface [polypeptide binding]; other site 395492012035 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395492012036 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395492012037 Walker A/P-loop; other site 395492012038 ATP binding site [chemical binding]; other site 395492012039 Q-loop/lid; other site 395492012040 ABC transporter signature motif; other site 395492012041 Walker B; other site 395492012042 D-loop; other site 395492012043 H-loop/switch region; other site 395492012044 TOBE domain; Region: TOBE_2; cl01440 395492012045 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395492012046 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492012047 dimer interface [polypeptide binding]; other site 395492012048 conserved gate region; other site 395492012049 putative PBP binding loops; other site 395492012050 ABC-ATPase subunit interface; other site 395492012051 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492012052 dimer interface [polypeptide binding]; other site 395492012053 conserved gate region; other site 395492012054 putative PBP binding loops; other site 395492012055 ABC-ATPase subunit interface; other site 395492012056 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492012057 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395492012058 Helix-turn-helix domains; Region: HTH; cl00088 395492012059 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 395492012060 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 395492012061 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 395492012062 putative FMN-dependent luciferase-like monooxygenase, KPN_01858 family; Region: LLM_KPN_01858; TIGR04027 395492012063 Cupin domain; Region: Cupin_2; cl09118 395492012064 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395492012065 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395492012066 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 395492012067 LysR family transcriptional regulator; Provisional; Region: PRK14997 395492012068 Helix-turn-helix domains; Region: HTH; cl00088 395492012069 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 395492012070 putative effector binding pocket; other site 395492012071 dimerization interface [polypeptide binding]; other site 395492012072 H+ Antiporter protein; Region: 2A0121; TIGR00900 395492012073 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 395492012074 dimerization interface [polypeptide binding]; other site 395492012075 putative DNA binding site [nucleotide binding]; other site 395492012076 putative Zn2+ binding site [ion binding]; other site 395492012077 cyclase homology domain; Region: CHD; cd07302 395492012078 nucleotidyl binding site; other site 395492012079 metal binding site [ion binding]; metal-binding site 395492012080 dimer interface [polypeptide binding]; other site 395492012081 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 395492012082 putative hydrophobic ligand binding site [chemical binding]; other site 395492012083 lumazine synthase and riboflavin synthase; involved in the riboflavin (vitamin B2) biosynthetic pathway; Region: Lumazine_synthase-like; cl00317 395492012084 active site 395492012085 homopentamer interface [polypeptide binding]; other site 395492012086 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_16; cd07263 395492012087 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395492012088 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 395492012089 transcriptional regulator; Provisional; Region: PRK10632 395492012090 Helix-turn-helix domains; Region: HTH; cl00088 395492012091 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 395492012092 putative effector binding pocket; other site 395492012093 dimerization interface [polypeptide binding]; other site 395492012094 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 395492012095 classical (c) SDRs; Region: SDR_c; cd05233 395492012096 NAD(P) binding site [chemical binding]; other site 395492012097 active site 395492012098 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 395492012099 homotrimer interaction site [polypeptide binding]; other site 395492012100 putative active site [active] 395492012101 FecR protein; Region: FecR; pfam04773 395492012102 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 395492012103 TPR motif; other site 395492012104 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 395492012105 binding surface 395492012106 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 395492012107 binding surface 395492012108 TPR motif; other site 395492012109 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 395492012110 binding surface 395492012111 TPR motif; other site 395492012112 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 395492012113 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 395492012114 CHASE2 domain; Region: CHASE2; cl01732 395492012115 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 395492012116 cyclase homology domain; Region: CHD; cd07302 395492012117 nucleotidyl binding site; other site 395492012118 metal binding site [ion binding]; metal-binding site 395492012119 dimer interface [polypeptide binding]; other site 395492012120 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395492012121 Helix-turn-helix domains; Region: HTH; cl00088 395492012122 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395492012123 atypical (a) SDRs, subgroup 1; Region: SDR_a1; cd05265 395492012124 putative NAD(P) binding site [chemical binding]; other site 395492012125 active site 395492012126 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 395492012127 active site 395492012128 NTP binding site [chemical binding]; other site 395492012129 metal binding triad [ion binding]; metal-binding site 395492012130 antibiotic binding site [chemical binding]; other site 395492012131 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 395492012132 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 395492012133 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 395492012134 trimer interface [polypeptide binding]; other site 395492012135 putative metal binding site [ion binding]; other site 395492012136 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 395492012137 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 395492012138 metal binding site 2 [ion binding]; metal-binding site 395492012139 putative DNA binding helix; other site 395492012140 metal binding site 1 [ion binding]; metal-binding site 395492012141 dimer interface [polypeptide binding]; other site 395492012142 structural Zn2+ binding site [ion binding]; other site 395492012143 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 395492012144 ABC-ATPase subunit interface; other site 395492012145 dimer interface [polypeptide binding]; other site 395492012146 putative PBP binding regions; other site 395492012147 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 395492012148 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 395492012149 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 395492012150 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 395492012151 metal binding site [ion binding]; metal-binding site 395492012152 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 395492012153 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492012154 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 395492012155 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 395492012156 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 395492012157 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395492012158 active site 395492012159 metal binding site [ion binding]; metal-binding site 395492012160 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 395492012161 Domain of unknown function DUF21; Region: DUF21; pfam01595 395492012162 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 395492012163 Transporter associated domain; Region: CorC_HlyC; cl08393 395492012164 Chromate transporter; Region: Chromate_transp; pfam02417 395492012165 Chromate transporter; Region: Chromate_transp; pfam02417 395492012166 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 395492012167 active site residue [active] 395492012168 Chromate resistance exported protein; Region: Chrome_Resist; cl01744 395492012169 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 395492012170 DNA polymerase LigD, ligase domain; Region: NHEJ_ligase_lig; TIGR02779 395492012171 active site 395492012172 DNA binding site [nucleotide binding] 395492012173 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 395492012174 DNA binding site [nucleotide binding] 395492012175 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 395492012176 Transposase; Region: DEDD_Tnp_IS110; pfam01548 395492012177 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 395492012178 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 395492012179 catalytic residues [active] 395492012180 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 395492012181 trimer interface [polypeptide binding]; other site 395492012182 active site 395492012183 substrate binding site [chemical binding]; other site 395492012184 CoA binding site [chemical binding]; other site 395492012185 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 395492012186 Bacteriophage related domain of unknown function; Region: DUF4128; pfam13554 395492012187 Encapsulating protein for peroxidase; Region: Linocin_M18; cl12047 395492012188 Uncharacterized protein conserved in bacteria (DUF2184); Region: DUF2184; pfam09950 395492012189 Uncharacterized protein conserved in bacteria (DUF2213); Region: DUF2213; cl15403 395492012190 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3567; cl12082 395492012191 Protein of unknown function (DUF1073); Region: DUF1073; pfam06381 395492012192 Terminase-like family; Region: Terminase_6; pfam03237 395492012193 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 395492012194 Uncharacterized conserved protein (DUF2280); Region: DUF2280; cl02353 395492012195 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 395492012196 N-Utilization Substance G (NusG) N-terminal (NGN) domain Superfamily; Region: NGN; cl02766 395492012197 GcrA cell cycle regulator; Region: GcrA; cl11564 395492012198 Protein of unknown function (DUF1376); Region: DUF1376; cl01531 395492012199 Protein of unknown function (DUF1064); Region: DUF1064; pfam06356 395492012200 Protein of unknown function (DUF982); Region: DUF982; pfam06169 395492012201 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 395492012202 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 395492012203 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 395492012204 Protein of unknown function (DUF982); Region: DUF982; pfam06169 395492012205 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 395492012206 cofactor binding site; other site 395492012207 DNA binding site [nucleotide binding] 395492012208 substrate interaction site [chemical binding]; other site 395492012209 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 395492012210 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; cl11480 395492012211 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 395492012212 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 395492012213 Catalytic site [active] 395492012214 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 395492012215 Divergent AAA domain; Region: AAA_4; pfam04326 395492012216 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 395492012217 Siphovirus Gp157; Region: Sipho_Gp157; pfam05565 395492012218 RecT family; Region: RecT; cl04285 395492012219 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 395492012220 Protein of unknown function (DUF1643); Region: DUF1643; cl01787 395492012221 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 395492012222 active site 395492012223 DNA binding site [nucleotide binding] 395492012224 Int/Topo IB signature motif; other site 395492012225 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 395492012226 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 395492012227 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 395492012228 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 395492012229 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492012230 Walker A/P-loop; other site 395492012231 ATP binding site [chemical binding]; other site 395492012232 Q-loop/lid; other site 395492012233 ABC transporter signature motif; other site 395492012234 Walker B; other site 395492012235 D-loop; other site 395492012236 H-loop/switch region; other site 395492012237 TOBE domain; Region: TOBE_2; cl01440 395492012238 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 395492012239 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492012240 dimer interface [polypeptide binding]; other site 395492012241 conserved gate region; other site 395492012242 putative PBP binding loops; other site 395492012243 ABC-ATPase subunit interface; other site 395492012244 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492012245 dimer interface [polypeptide binding]; other site 395492012246 conserved gate region; other site 395492012247 putative PBP binding loops; other site 395492012248 ABC-ATPase subunit interface; other site 395492012249 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492012250 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 395492012251 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395492012252 Transcriptional regulators [Transcription]; Region: MarR; COG1846 395492012253 Helix-turn-helix domains; Region: HTH; cl00088 395492012254 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 395492012255 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 395492012256 active site 395492012257 catalytic tetrad [active] 395492012258 Uncharacterized conserved protein [Function unknown]; Region: COG5634 395492012259 Uncharacterized conserved protein (DUF2278); Region: DUF2278; pfam10042 395492012260 Lamin Tail Domain; Region: LTD; pfam00932 395492012261 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 395492012262 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 395492012263 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492012264 homodimer interface [polypeptide binding]; other site 395492012265 catalytic residue [active] 395492012266 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 395492012267 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 395492012268 homodimer interface [polypeptide binding]; other site 395492012269 substrate-cofactor binding pocket; other site 395492012270 catalytic residue [active] 395492012271 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 395492012272 putative active site [active] 395492012273 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 395492012274 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 395492012275 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 395492012276 ketol-acid reductoisomerase; Provisional; Region: PRK05479 395492012277 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492012278 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 395492012279 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395492012280 Helix-turn-helix domains; Region: HTH; cl00088 395492012281 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 395492012282 Yersinia Pseudotuberculosis carbohydrate kinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_YpCarbK_like; cd07782 395492012283 FGGY-family pentulose kinase; Region: 5C_CHO_kinase; TIGR01315 395492012284 N- and C-terminal domain interface [polypeptide binding]; other site 395492012285 putative active site [active] 395492012286 putative MgATP binding site [chemical binding]; other site 395492012287 catalytic site [active] 395492012288 metal binding site [ion binding]; metal-binding site 395492012289 carbohydrate binding site [chemical binding]; other site 395492012290 putative homodimer interface [polypeptide binding]; other site 395492012291 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 395492012292 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 395492012293 Ligand binding site; other site 395492012294 Putative Catalytic site; other site 395492012295 DXD motif; other site 395492012296 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 395492012297 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 395492012298 probable cinnamyl alcohol dehydrogenase; Region: PLN02586 395492012299 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 395492012300 putative NAD(P) binding site [chemical binding]; other site 395492012301 putative substrate binding site [chemical binding]; other site 395492012302 catalytic Zn binding site [ion binding]; other site 395492012303 structural Zn binding site [ion binding]; other site 395492012304 dimer interface [polypeptide binding]; other site 395492012305 OpgC protein; Region: OpgC_C; cl00792 395492012306 Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]; Region: FusA; COG0480 395492012307 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492012308 G1 box; other site 395492012309 GTP/Mg2+ binding site [chemical binding]; other site 395492012310 G2 box; other site 395492012311 Switch I region; other site 395492012312 G3 box; other site 395492012313 Switch II region; other site 395492012314 G4 box; other site 395492012315 G5 box; other site 395492012316 Tet_II: This subfamily represents domain II of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to domain II of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome...; Region: Tet_II; cd03690 395492012317 EF-G_domain IV_RPP domain is a part of bacterial ribosomal protected proteins (RPP) family. RPPs such as tetracycline resistance proteins Tet(M) and Tet(O) mediate tetracycline resistance in both gram-positive and -negative species. Tetracyclines inhibit...; Region: Tet_like_IV; cd01684 395492012318 Elongation factor G C-terminus. This domain includes the carboxyl terminal regions of elongation factors (EFs) bacterial EF-G, eukaryotic and archeal EF-2 and eukaryotic mitochondrial mtEFG1s and mtEFG2s. This group also includes proteins similar to the...; Region: Elongation_Factor_C; cl02785 395492012319 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 395492012320 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395492012321 BA14K-like protein; Region: BA14K; pfam07886 395492012322 Helix-turn-helix domains; Region: HTH; cl00088 395492012323 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 395492012324 aspartate racemase; Region: asp_race; TIGR00035 395492012325 Helix-turn-helix domains; Region: HTH; cl00088 395492012326 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 395492012327 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395492012328 Coenzyme A binding pocket [chemical binding]; other site 395492012329 Helix-turn-helix domains; Region: HTH; cl00088 395492012330 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 395492012331 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 395492012332 Helix-turn-helix domains; Region: HTH; cl00088 395492012333 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492012334 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 395492012335 NAD(P) binding site [chemical binding]; other site 395492012336 active site 395492012337 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in the...; Region: PNPsynthase; cd00003 395492012338 active site 395492012339 hydrophilic channel; other site 395492012340 dimerization interface [polypeptide binding]; other site 395492012341 catalytic residues [active] 395492012342 active site lid [active] 395492012343 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 395492012344 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 395492012345 dimer interface [polypeptide binding]; other site 395492012346 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 395492012347 DNA binding residues [nucleotide binding] 395492012348 dimerization interface [polypeptide binding]; other site 395492012349 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492012350 Family description; Region: UvrD_C_2; cl15862 395492012351 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395492012352 Helix-turn-helix domains; Region: HTH; cl00088 395492012353 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 395492012354 putative effector binding pocket; other site 395492012355 dimerization interface [polypeptide binding]; other site 395492012356 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 395492012357 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492012358 NADH(P)-binding; Region: NAD_binding_10; pfam13460 395492012359 NAD(P) binding site [chemical binding]; other site 395492012360 active site 395492012361 Cupin domain; Region: Cupin_2; cl09118 395492012362 Mechanosensitive ion channel; Region: MS_channel; pfam00924 395492012363 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 395492012364 ligand binding site [chemical binding]; other site 395492012365 flexible hinge region; other site 395492012366 Predicted transcriptional regulator [Transcription]; Region: COG1959 395492012367 Helix-turn-helix domains; Region: HTH; cl00088 395492012368 Helix-turn-helix domains; Region: HTH; cl00088 395492012369 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 395492012370 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 395492012371 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395492012372 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 395492012373 DNA binding residues [nucleotide binding] 395492012374 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 395492012375 nitrile hydratase, beta subunit; Region: nitrile_beta; cl03486 395492012376 Nitrile hydratase beta subunit; Region: NHase_beta; pfam02211 395492012377 nitrile hydratase, beta subunit; Region: nitrile_beta; cl03486 395492012378 Nitrile hydratase, alpha chain; Region: NHase_alpha; pfam02979 395492012379 NHLP leader peptide domain; Region: TOMM_pelo; cl15464 395492012380 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492012381 NADH(P)-binding; Region: NAD_binding_10; pfam13460 395492012382 NAD(P) binding site [chemical binding]; other site 395492012383 active site 395492012384 DoxX-like family; Region: DoxX_3; pfam13781 395492012385 Predicted integral membrane protein (DUF2269); Region: DUF2269; cl02335 395492012386 LysE type translocator; Region: LysE; cl00565 395492012387 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 395492012388 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 395492012389 active site 395492012390 catalytic tetrad [active] 395492012391 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 395492012392 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 395492012393 putative valine binding site [chemical binding]; other site 395492012394 dimer interface [polypeptide binding]; other site 395492012395 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 395492012396 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 395492012397 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 395492012398 PYR/PP interface [polypeptide binding]; other site 395492012399 dimer interface [polypeptide binding]; other site 395492012400 TPP binding site [chemical binding]; other site 395492012401 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 395492012402 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 395492012403 TPP-binding site [chemical binding]; other site 395492012404 dimer interface [polypeptide binding]; other site 395492012405 HerA helicase [Replication, recombination, and repair]; Region: COG0433 395492012406 Domain of unknown function DUF87; Region: DUF87; pfam01935 395492012407 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 395492012408 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 395492012409 inhibitor site; inhibition site 395492012410 active site 395492012411 dimer interface [polypeptide binding]; other site 395492012412 catalytic residue [active] 395492012413 Uncharacterized protein conserved in bacteria, putative lipoprotein [Function unknown]; Region: LprI; COG4461 395492012414 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 395492012415 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 395492012416 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492012417 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 395492012418 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 395492012419 motif II; other site 395492012420 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 395492012421 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 395492012422 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 395492012423 protein binding site [polypeptide binding]; other site 395492012424 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 395492012425 protein binding site [polypeptide binding]; other site 395492012426 HflC protein; Region: hflC; TIGR01932 395492012427 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 395492012428 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 395492012429 HflK protein; Region: hflK; TIGR01933 395492012430 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 395492012431 folate binding site [chemical binding]; other site 395492012432 NADP+ binding site [chemical binding]; other site 395492012433 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 395492012434 dimerization interface [polypeptide binding]; other site 395492012435 active site 395492012436 Stringent starvation protein B; Region: SspB; cl01120 395492012437 Domain of unknown function (DUF4169); Region: DUF4169; pfam13770 395492012438 Ribbon-helix-helix domain; Region: RHH_4; cl01775 395492012439 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 395492012440 AsmA-like C-terminal region; Region: AsmA_2; cl15864 395492012441 D-lactate dehydrogenase [cytochrome]; Region: PLN02805 395492012442 FAD binding domain; Region: FAD_binding_4; pfam01565 395492012443 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 395492012444 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 395492012445 active site 395492012446 catalytic tetrad [active] 395492012447 LysR family transcriptional regulator; Provisional; Region: PRK14997 395492012448 Helix-turn-helix domains; Region: HTH; cl00088 395492012449 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492012450 dimerization interface [polypeptide binding]; other site 395492012451 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 395492012452 Putative ammonia monooxygenase; Region: AmoA; pfam05145 395492012453 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 395492012454 Cupin domain; Region: Cupin_2; cl09118 395492012455 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 395492012456 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395492012457 Protein of unknown function (DUF2000); Region: DUF2000; cl02074 395492012458 putative outer membrane lipoprotein; Provisional; Region: PRK10510 395492012459 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 395492012460 ligand binding site [chemical binding]; other site 395492012461 flagellin; Reviewed; Region: PRK12687 395492012462 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 395492012463 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 395492012464 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 395492012465 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395492012466 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395492012467 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395492012468 cyclase homology domain; Region: CHD; cd07302 395492012469 nucleotidyl binding site; other site 395492012470 metal binding site [ion binding]; metal-binding site 395492012471 dimer interface [polypeptide binding]; other site 395492012472 2TM domain; Region: 2TM; pfam13239 395492012473 SpoVR family protein; Provisional; Region: PRK11767 395492012474 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 395492012475 Uncharacterized conserved protein [Function unknown]; Region: COG2718 395492012476 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 395492012477 PrkA family serine protein kinase; Provisional; Region: PRK15455 395492012478 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492012479 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 395492012480 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 395492012481 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492012482 Family description; Region: UvrD_C_2; cl15862 395492012483 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl08302 395492012484 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 395492012485 Isochorismatase family; Region: Isochorismatase; pfam00857 395492012486 catalytic triad [active] 395492012487 metal binding site [ion binding]; metal-binding site 395492012488 conserved cis-peptide bond; other site 395492012489 Uncharacterized conserved protein (DUF2164); Region: DUF2164; cl02278 395492012490 AzlC protein; Region: AzlC; cl00570 395492012491 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 395492012492 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 395492012493 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 395492012494 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 395492012495 active site 395492012496 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 395492012497 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 395492012498 S-adenosylmethionine binding site [chemical binding]; other site 395492012499 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 395492012500 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 395492012501 Cu(I) binding site [ion binding]; other site 395492012502 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 395492012503 putative CheA interaction surface; other site 395492012504 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 395492012505 CreA protein; Region: CreA; pfam05981 395492012506 an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III; Region: DNA_pol_III_epsilon_like; cd06130 395492012507 active site 395492012508 catalytic site [active] 395492012509 substrate binding site [chemical binding]; other site 395492012510 putative acetyltransferase YhhY; Provisional; Region: PRK10140 395492012511 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395492012512 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 395492012513 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cd00114 395492012514 nucleotide binding pocket [chemical binding]; other site 395492012515 K-X-D-G motif; other site 395492012516 catalytic site [active] 395492012517 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 395492012518 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 395492012519 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo...; Region: BRCT; cd00027 395492012520 Dimer interface [polypeptide binding]; other site 395492012521 BRCT sequence motif; other site 395492012522 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395492012523 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 395492012524 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 395492012525 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 395492012526 Walker A/P-loop; other site 395492012527 ATP binding site [chemical binding]; other site 395492012528 Q-loop/lid; other site 395492012529 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 395492012530 Q-loop/lid; other site 395492012531 ABC transporter signature motif; other site 395492012532 Walker B; other site 395492012533 D-loop; other site 395492012534 H-loop/switch region; other site 395492012535 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 395492012536 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 395492012537 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 395492012538 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 395492012539 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 395492012540 nucleotide binding site [chemical binding]; other site 395492012541 SulA interaction site; other site 395492012542 cell division protein FtsZ, alphaProteobacterial C-terminal extension; Region: FtsZ_alphas_C; TIGR03483 395492012543 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 395492012544 Cell division protein FtsA; Region: FtsA; cl11496 395492012545 Cell division protein FtsA; Region: FtsA; cl11496 395492012546 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 395492012547 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 395492012548 Cell division protein FtsQ; Region: FtsQ; pfam03799 395492012549 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 395492012550 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 395492012551 ATP-grasp domain; Region: ATP-grasp_4; cl03087 395492012552 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cl00200 395492012553 amphipathic channel; other site 395492012554 Asn-Pro-Ala signature motifs; other site 395492012555 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395492012556 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 395492012557 putative NAD(P) binding site [chemical binding]; other site 395492012558 active site 395492012559 putative substrate binding site [chemical binding]; other site 395492012560 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 395492012561 FAD binding domain; Region: FAD_binding_4; pfam01565 395492012562 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 395492012563 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 395492012564 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 395492012565 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 395492012566 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 395492012567 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 395492012568 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 395492012569 active site 395492012570 homodimer interface [polypeptide binding]; other site 395492012571 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 395492012572 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 395492012573 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492012574 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 395492012575 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 395492012576 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 395492012577 Mg++ binding site [ion binding]; other site 395492012578 putative catalytic motif [active] 395492012579 putative substrate binding site [chemical binding]; other site 395492012580 UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional; Region: PRK14093 395492012581 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 395492012582 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 395492012583 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 395492012584 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 395492012585 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 395492012586 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 395492012587 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 395492012588 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 395492012589 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 395492012590 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 395492012591 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 395492012592 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 395492012593 cell division protein MraZ; Reviewed; Region: PRK00326 395492012594 N-methyltryptophan oxidase; Provisional; Region: solA; PRK11259 395492012595 FAD dependent oxidoreductase; Region: DAO; pfam01266 395492012596 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 395492012597 N-acetyl-D-glucosamine binding site [chemical binding]; other site 395492012598 catalytic residue [active] 395492012599 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 395492012600 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 395492012601 amidase catalytic site [active] 395492012602 Zn binding residues [ion binding]; other site 395492012603 substrate binding site [chemical binding]; other site 395492012604 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 395492012605 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 395492012606 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 395492012607 putative metal binding site [ion binding]; other site 395492012608 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 395492012609 HSP70 interaction site [polypeptide binding]; other site 395492012610 pyrophosphate--fructose-6-phosphate 1-phosphotransferase; Validated; Region: PRK06555 395492012611 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 395492012612 active site 395492012613 ADP/pyrophosphate binding site [chemical binding]; other site 395492012614 allosteric effector site; other site 395492012615 dimerization interface [polypeptide binding]; other site 395492012616 fructose-1,6-bisphosphate binding site; other site 395492012617 LysE type translocator; Region: LysE; cl00565 395492012618 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 395492012619 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 395492012620 N-acetyl-D-glucosamine binding site [chemical binding]; other site 395492012621 catalytic residue [active] 395492012622 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 395492012623 Protein of unknown function (DUF3419); Region: DUF3419; cl15422 395492012624 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 395492012625 S-adenosylmethionine binding site [chemical binding]; other site 395492012626 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 395492012627 Uncharacterized bacterial muramidase containing a glycosyl hydrolase family 25 (GH25) catalytic domain. Endo-N-acetylmuramidases are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis...; Region: GH25_muramidase_1; cd06413 395492012628 active site 395492012629 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 395492012630 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 395492012631 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 395492012632 EamA-like transporter family; Region: EamA; cl01037 395492012633 EamA-like transporter family; Region: EamA; cl01037 395492012634 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 395492012635 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 395492012636 FAD binding site [chemical binding]; other site 395492012637 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 395492012638 putative DNA binding site [nucleotide binding]; other site 395492012639 dimerization interface [polypeptide binding]; other site 395492012640 Predicted methyltransferase (contains TPR repeat) [General function prediction only]; Region: COG4976 395492012641 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 395492012642 S-adenosylmethionine binding site [chemical binding]; other site 395492012643 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 395492012644 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492012645 Walker A/P-loop; other site 395492012646 ATP binding site [chemical binding]; other site 395492012647 Q-loop/lid; other site 395492012648 ABC transporter signature motif; other site 395492012649 Walker B; other site 395492012650 D-loop; other site 395492012651 H-loop/switch region; other site 395492012652 ABC transporter; Region: ABC_tran_2; pfam12848 395492012653 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 395492012654 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 395492012655 B1 nucleotide binding pocket [chemical binding]; other site 395492012656 B2 nucleotide binding pocket [chemical binding]; other site 395492012657 CAS motifs; other site 395492012658 active site 395492012659 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 395492012660 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395492012661 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395492012662 EamA-like transporter family; Region: EamA; cl01037 395492012663 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 395492012664 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 395492012665 CoA-transferase family III; Region: CoA_transf_3; pfam02515 395492012666 thiamine pyrophosphate protein; Validated; Region: PRK08199 395492012667 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 395492012668 PYR/PP interface [polypeptide binding]; other site 395492012669 dimer interface [polypeptide binding]; other site 395492012670 TPP binding site [chemical binding]; other site 395492012671 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 395492012672 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 395492012673 TPP-binding site [chemical binding]; other site 395492012674 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 395492012675 homotrimer interaction site [polypeptide binding]; other site 395492012676 putative active site [active] 395492012677 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 395492012678 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 395492012679 active site 395492012680 catalytic residues [active] 395492012681 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 395492012682 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 395492012683 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 395492012684 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 395492012685 P-loop; other site 395492012686 Magnesium ion binding site [ion binding]; other site 395492012687 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 395492012688 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 395492012689 putative active site [active] 395492012690 metal binding site [ion binding]; metal-binding site 395492012691 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395492012692 Uncharacterized aldehyde dehydrogenase of Synechococcus sp. PCC 7335 (EDX86601); Region: ALDH_EDX86601; cd07102 395492012693 NAD(P) binding site [chemical binding]; other site 395492012694 catalytic residues [active] 395492012695 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 395492012696 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 395492012697 amino acid permease (GABA permease); Region: 2A0304; TIGR00907 395492012698 Spore germination protein; Region: Spore_permease; cl15802 395492012699 N-formylglutamate amidohydrolase; Region: FGase; cl01522 395492012700 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 395492012701 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 395492012702 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 395492012703 putative active site [active] 395492012704 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 395492012705 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492012706 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 395492012707 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 395492012708 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492012709 dimer interface [polypeptide binding]; other site 395492012710 conserved gate region; other site 395492012711 putative PBP binding loops; other site 395492012712 ABC-ATPase subunit interface; other site 395492012713 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 395492012714 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492012715 Walker A/P-loop; other site 395492012716 ATP binding site [chemical binding]; other site 395492012717 Q-loop/lid; other site 395492012718 ABC transporter signature motif; other site 395492012719 Walker B; other site 395492012720 D-loop; other site 395492012721 H-loop/switch region; other site 395492012722 TOBE domain; Region: TOBE_2; cl01440 395492012723 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 395492012724 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 395492012725 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395492012726 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395492012727 Walker A/P-loop; other site 395492012728 ATP binding site [chemical binding]; other site 395492012729 Q-loop/lid; other site 395492012730 ABC transporter signature motif; other site 395492012731 Walker B; other site 395492012732 D-loop; other site 395492012733 H-loop/switch region; other site 395492012734 TOBE domain; Region: TOBE_2; cl01440 395492012735 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395492012736 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492012737 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395492012738 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492012739 dimer interface [polypeptide binding]; other site 395492012740 conserved gate region; other site 395492012741 putative PBP binding loops; other site 395492012742 ABC-ATPase subunit interface; other site 395492012743 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 395492012744 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492012745 dimer interface [polypeptide binding]; other site 395492012746 conserved gate region; other site 395492012747 putative PBP binding loops; other site 395492012748 ABC-ATPase subunit interface; other site 395492012749 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395492012750 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492012751 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 395492012752 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 395492012753 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 395492012754 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395492012755 DNA-binding site [nucleotide binding]; DNA binding site 395492012756 UTRA domain; Region: UTRA; cl01230 395492012757 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 395492012758 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 395492012759 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 395492012760 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 395492012761 substrate binding pocket [chemical binding]; other site 395492012762 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 395492012763 B12 binding site [chemical binding]; other site 395492012764 cobalt ligand [ion binding]; other site 395492012765 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 395492012766 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cd00249 395492012767 N-acyl-D-glucosamine 2-epimerase [Carbohydrate transport and metabolism]; Region: COG2942 395492012768 dimerization interface [polypeptide binding]; other site 395492012769 putative active cleft [active] 395492012770 Domain of unknown function (DUF336); Region: DUF336; cl01249 395492012771 Flavin Reductases; Region: FlaRed; cl00801 395492012772 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 395492012773 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492012774 dimer interface [polypeptide binding]; other site 395492012775 conserved gate region; other site 395492012776 putative PBP binding loops; other site 395492012777 ABC-ATPase subunit interface; other site 395492012778 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492012779 dimer interface [polypeptide binding]; other site 395492012780 conserved gate region; other site 395492012781 putative PBP binding loops; other site 395492012782 ABC-ATPase subunit interface; other site 395492012783 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492012784 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 395492012785 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492012786 Walker A/P-loop; other site 395492012787 ATP binding site [chemical binding]; other site 395492012788 Q-loop/lid; other site 395492012789 ABC transporter signature motif; other site 395492012790 Walker B; other site 395492012791 D-loop; other site 395492012792 H-loop/switch region; other site 395492012793 TOBE domain; Region: TOBE_2; cl01440 395492012794 Transcriptional regulators [Transcription]; Region: GntR; COG1802 395492012795 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395492012796 DNA-binding site [nucleotide binding]; DNA binding site 395492012797 FCD domain; Region: FCD; cl11656 395492012798 Domain of unknown function (DUF4174); Region: DUF4174; pfam13778 395492012799 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 395492012800 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 395492012801 GIY-YIG motif/motif A; other site 395492012802 putative active site [active] 395492012803 putative metal binding site [ion binding]; other site 395492012804 Autoinducer binding domain; Region: Autoind_bind; pfam03472 395492012805 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 395492012806 DNA binding residues [nucleotide binding] 395492012807 dimerization interface [polypeptide binding]; other site 395492012808 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395492012809 Response regulator receiver domain; Region: Response_reg; pfam00072 395492012810 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492012811 active site 395492012812 phosphorylation site [posttranslational modification] 395492012813 intermolecular recognition site; other site 395492012814 dimerization interface [polypeptide binding]; other site 395492012815 Protein of unknown function (DUF1616); Region: DUF1616; cl01959 395492012816 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 395492012817 Protein of unknown function (DUF541); Region: SIMPL; cl01077 395492012818 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 395492012819 Protein of unknown function (DUF1428); Region: DUF1428; cl02319 395492012820 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 395492012821 Bacterial protein of unknown function (DUF922); Region: DUF922; cl02415 395492012822 H+ Antiporter protein; Region: 2A0121; TIGR00900 395492012823 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395492012824 putative substrate translocation pore; other site 395492012825 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 395492012826 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 395492012827 ligand binding site [chemical binding]; other site 395492012828 flexible hinge region; other site 395492012829 Helix-turn-helix domains; Region: HTH; cl00088 395492012830 Domain of unknown function (DUF427); Region: DUF427; cl00998 395492012831 B3/4 domain; Region: B3_4; cl11458 395492012832 EamA-like transporter family; Region: EamA; cl01037 395492012833 Cupin domain; Region: Cupin_2; cl09118 395492012834 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395492012835 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395492012836 Aminoglycoside 3'-phosphotransferase (APH). The APH subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase; Region: APH; cd05150 395492012837 Phosphotransferase enzyme family; Region: APH; pfam01636 395492012838 active site 395492012839 ATP binding site [chemical binding]; other site 395492012840 antibiotic binding site [chemical binding]; other site 395492012841 Domain of Unknown Function (DUF930); Region: DUF930; pfam06059 395492012842 Domain of Unknown Function (DUF930); Region: DUF930; pfam06059 395492012843 GYD domain; Region: GYD; cl01743 395492012844 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 395492012845 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 395492012846 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 395492012847 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 395492012848 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395492012849 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 395492012850 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 395492012851 DNA binding residues [nucleotide binding] 395492012852 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 395492012853 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 395492012854 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 395492012855 NAD(P) binding site [chemical binding]; other site 395492012856 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 395492012857 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 395492012858 substrate-cofactor binding pocket; other site 395492012859 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492012860 catalytic residue [active] 395492012861 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 395492012862 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 395492012863 ATP binding site [chemical binding]; other site 395492012864 putative Mg++ binding site [ion binding]; other site 395492012865 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 395492012866 nucleotide binding region [chemical binding]; other site 395492012867 ATP-binding site [chemical binding]; other site 395492012868 RQC domain; Region: RQC; cl09632 395492012869 HRDC domain; Region: HRDC; cl02578 395492012870 DNA primase; Validated; Region: dnaG; PRK05667 395492012871 CHC2 zinc finger; Region: zf-CHC2; cl15369 395492012872 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 395492012873 TOPRIM_DnaG_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of proteins similar to Escherichia coli DnaG. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_DnaG_primases; cd03364 395492012874 active site 395492012875 metal binding site [ion binding]; metal-binding site 395492012876 interdomain interaction site; other site 395492012877 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 395492012878 GatB domain; Region: GatB_Yqey; cl11497 395492012879 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 395492012880 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 395492012881 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 395492012882 catalytic site [active] 395492012883 subunit interface [polypeptide binding]; other site 395492012884 multidrug efflux protein; Reviewed; Region: PRK01766 395492012885 MatE; Region: MatE; cl10513 395492012886 MatE; Region: MatE; cl10513 395492012887 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395492012888 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395492012889 putative substrate translocation pore; other site 395492012890 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 395492012891 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 395492012892 active site 395492012893 catalytic tetrad [active] 395492012894 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; cl00988 395492012895 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 395492012896 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 395492012897 ATP-grasp domain; Region: ATP-grasp_4; cl03087 395492012898 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 395492012899 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 395492012900 ATP-grasp domain; Region: ATP-grasp_4; cl03087 395492012901 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 395492012902 IMP binding site; other site 395492012903 dimer interface [polypeptide binding]; other site 395492012904 partial ornithine binding site; other site 395492012905 Domain of unknown function (DUF4130; Region: DUF4130; cl14836 395492012906 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 395492012907 Fe-S cluster binding site [ion binding]; other site 395492012908 active site 395492012909 Predicted DNA-binding protein with the Helix-hairpin-helix motif [General function prediction only]; Region: COG4277 395492012910 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 395492012911 FeS/SAM binding site; other site 395492012912 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 395492012913 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 395492012914 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 395492012915 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 395492012916 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 395492012917 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 395492012918 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 395492012919 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 395492012920 dimer interface [polypeptide binding]; other site 395492012921 phosphorylation site [posttranslational modification] 395492012922 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 395492012923 ATP binding site [chemical binding]; other site 395492012924 Mg2+ binding site [ion binding]; other site 395492012925 G-X-G motif; other site 395492012926 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 395492012927 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492012928 active site 395492012929 phosphorylation site [posttranslational modification] 395492012930 intermolecular recognition site; other site 395492012931 dimerization interface [polypeptide binding]; other site 395492012932 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 395492012933 Walker A motif; other site 395492012934 ATP binding site [chemical binding]; other site 395492012935 Walker B motif; other site 395492012936 arginine finger; other site 395492012937 Helix-turn-helix domains; Region: HTH; cl00088 395492012938 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 395492012939 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 395492012940 putative DNA binding site [nucleotide binding]; other site 395492012941 putative Zn2+ binding site [ion binding]; other site 395492012942 Helix-turn-helix domains; Region: HTH; cl00088 395492012943 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 395492012944 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395492012945 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395492012946 Helix-turn-helix domains; Region: HTH; cl00088 395492012947 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 395492012948 putative effector binding pocket; other site 395492012949 dimerization interface [polypeptide binding]; other site 395492012950 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 395492012951 dimerization interface [polypeptide binding]; other site 395492012952 putative DNA binding site [nucleotide binding]; other site 395492012953 putative Zn2+ binding site [ion binding]; other site 395492012954 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395492012955 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395492012956 putative substrate translocation pore; other site 395492012957 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 395492012958 FMN binding site [chemical binding]; other site 395492012959 active site 395492012960 substrate binding site [chemical binding]; other site 395492012961 catalytic residue [active] 395492012962 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 395492012963 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395492012964 atypical (a) SDRs, subgroup 3; Region: SDR_a3; cd05229 395492012965 putative NAD(P) binding site [chemical binding]; other site 395492012966 putative active site [active] 395492012967 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395492012968 Helix-turn-helix domains; Region: HTH; cl00088 395492012969 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492012970 dimerization interface [polypeptide binding]; other site 395492012971 Uncharacterized protein family (UPF0157); Region: UPF0157; cl00987 395492012972 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 395492012973 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 395492012974 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 395492012975 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 395492012976 Ligand binding site; other site 395492012977 metal-binding site 395492012978 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 395492012979 putative active site [active] 395492012980 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 395492012981 aspartate aminotransferase; Provisional; Region: PRK05764 395492012982 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 395492012983 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492012984 homodimer interface [polypeptide binding]; other site 395492012985 catalytic residue [active] 395492012986 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 395492012987 marine proteobacterial sortase target protein; Region: marine_srt_targ; TIGR03788 395492012988 Vault protein inter-alpha-trypsin domain; Region: VIT; cl02699 395492012989 vWA_interalpha trypsin inhibitor (ITI): ITI is a glycoprotein composed of three polypeptides- two heavy chains and one light chain (bikunin). Bikunin confers the protease-inhibitor function while the heavy chains are involved in rendering stability to...; Region: vWA_interalpha_trypsin_inhibitor; cd01461 395492012990 metal ion-dependent adhesion site (MIDAS); other site 395492012991 Sortase D (SrtD) is a membrane transpeptidase found in gram-positive bacteria that anchors surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is cleaved...; Region: Sortase_D_4; cd05828 395492012992 active site 395492012993 catalytic site [active] 395492012994 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 395492012995 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 395492012996 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 395492012997 DNA-binding site [nucleotide binding]; DNA binding site 395492012998 RNA-binding motif; other site 395492012999 BA14K-like protein; Region: BA14K; pfam07886 395492013000 short chain dehydrogenase; Provisional; Region: PRK06180 395492013001 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 395492013002 NADP binding site [chemical binding]; other site 395492013003 active site 395492013004 steroid binding site; other site 395492013005 Helix-turn-helix domains; Region: HTH; cl00088 395492013006 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 395492013007 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 395492013008 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 395492013009 ATP binding site [chemical binding]; other site 395492013010 Mg2+ binding site [ion binding]; other site 395492013011 G-X-G motif; other site 395492013012 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 395492013013 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492013014 active site 395492013015 phosphorylation site [posttranslational modification] 395492013016 intermolecular recognition site; other site 395492013017 dimerization interface [polypeptide binding]; other site 395492013018 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 395492013019 DNA binding site [nucleotide binding] 395492013020 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 395492013021 Helix-turn-helix domains; Region: HTH; cl00088 395492013022 Bacterial SH3 domain; Region: SH3_3; cl02551 395492013023 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 395492013024 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 395492013025 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 395492013026 dimer interface [polypeptide binding]; other site 395492013027 putative tRNA-binding site [nucleotide binding]; other site 395492013028 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 395492013029 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492013030 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 395492013031 Membrane fusogenic activity; Region: BMFP; cl01115 395492013032 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 395492013033 Uncharacterized conserved protein [Function unknown]; Region: COG1565 395492013034 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 395492013035 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 395492013036 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 395492013037 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 395492013038 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 395492013039 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 395492013040 active site 395492013041 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 395492013042 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 395492013043 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 395492013044 active site 395492013045 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 395492013046 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 395492013047 5S rRNA interface [nucleotide binding]; other site 395492013048 CTC domain interface [polypeptide binding]; other site 395492013049 L16 interface [polypeptide binding]; other site 395492013050 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 395492013051 PAS domain S-box; Region: sensory_box; TIGR00229 395492013052 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 395492013053 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395492013054 metal binding site [ion binding]; metal-binding site 395492013055 active site 395492013056 I-site; other site 395492013057 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 395492013058 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 395492013059 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395492013060 substrate binding pocket [chemical binding]; other site 395492013061 membrane-bound complex binding site; other site 395492013062 hinge residues; other site 395492013063 Peptidyl-tRNA hydrolase (PTH) is a monomeric protein that cleaves the ester bond linking the nascent peptide and tRNA when peptidyl-tRNA is released prematurely from the ribosome. This ensures the recycling of peptidyl-tRNAs into tRNAs produced through...; Region: PTH; cd00462 395492013064 putative active site [active] 395492013065 catalytic residue [active] 395492013066 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 395492013067 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 395492013068 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395492013069 Coenzyme A binding pocket [chemical binding]; other site 395492013070 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 395492013071 GTP-binding protein YchF; Reviewed; Region: PRK09601 395492013072 YchF GTPase; Region: YchF; cd01900 395492013073 G1 box; other site 395492013074 GTP/Mg2+ binding site [chemical binding]; other site 395492013075 Switch I region; other site 395492013076 G2 box; other site 395492013077 Switch II region; other site 395492013078 G3 box; other site 395492013079 G4 box; other site 395492013080 G5 box; other site 395492013081 TGS_YchF_C: This subfamily represents TGS domain-containing YchF GTP-binding protein, a universally conserved GTPase whose function is unknown. The N-terminal domain of the YchF protein belongs to the Obg-like family of GTPases, and some members of the...; Region: TGS_YchF_C; cd04867 395492013082 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 395492013083 putative active site [active] 395492013084 putative catalytic site [active] 395492013085 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 395492013086 putative active site [active] 395492013087 putative catalytic site [active] 395492013088 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 395492013089 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 395492013090 active site 395492013091 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 395492013092 cytochrome b; Provisional; Region: CYTB; MTH00191 395492013093 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 395492013094 Qi binding site; other site 395492013095 intrachain domain interface; other site 395492013096 interchain domain interface [polypeptide binding]; other site 395492013097 heme bH binding site [chemical binding]; other site 395492013098 heme bL binding site [chemical binding]; other site 395492013099 Qo binding site; other site 395492013100 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cd00290 395492013101 interchain domain interface [polypeptide binding]; other site 395492013102 intrachain domain interface; other site 395492013103 Qi binding site; other site 395492013104 Qo binding site; other site 395492013105 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 395492013106 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 395492013107 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 395492013108 [2Fe-2S] cluster binding site [ion binding]; other site 395492013109 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 395492013110 putative catalytic site [active] 395492013111 putative metal binding site [ion binding]; other site 395492013112 putative phosphate binding site [ion binding]; other site 395492013113 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 395492013114 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 395492013115 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492013116 Walker A/P-loop; other site 395492013117 ATP binding site [chemical binding]; other site 395492013118 Q-loop/lid; other site 395492013119 ABC transporter signature motif; other site 395492013120 Walker B; other site 395492013121 D-loop; other site 395492013122 H-loop/switch region; other site 395492013123 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 395492013124 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 395492013125 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 395492013126 Walker A/P-loop; other site 395492013127 ATP binding site [chemical binding]; other site 395492013128 Q-loop/lid; other site 395492013129 ABC transporter signature motif; other site 395492013130 Walker B; other site 395492013131 D-loop; other site 395492013132 H-loop/switch region; other site 395492013133 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 395492013134 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 395492013135 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 395492013136 PhoU domain; Region: PhoU; pfam01895 395492013137 PhoU domain; Region: PhoU; pfam01895 395492013138 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 395492013139 Protein of unknown function (DUF1059); Region: DUF1059; cl02284 395492013140 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 395492013141 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 395492013142 active site 395492013143 NTP binding site [chemical binding]; other site 395492013144 metal binding triad [ion binding]; metal-binding site 395492013145 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 395492013146 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 395492013147 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 395492013148 putative active site [active] 395492013149 putative CoA binding site [chemical binding]; other site 395492013150 nudix motif; other site 395492013151 metal binding site [ion binding]; metal-binding site 395492013152 Protein of unknown function (DUF1285); Region: DUF1285; cl01571 395492013153 MoxR-like ATPases [General function prediction only]; Region: COG0714 395492013154 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492013155 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 395492013156 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 395492013157 Aerotolerance regulator N-terminal; Region: BatA; cl06567 395492013158 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 395492013159 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 395492013160 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 395492013161 Predicted acetyltransferase [General function prediction only]; Region: COG3153 395492013162 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395492013163 Coenzyme A binding pocket [chemical binding]; other site 395492013164 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 395492013165 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 395492013166 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 395492013167 putative dimer interface [polypeptide binding]; other site 395492013168 N-terminal domain interface [polypeptide binding]; other site 395492013169 putative substrate binding pocket (H-site) [chemical binding]; other site 395492013170 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_21; cd04680 395492013171 nudix motif; other site 395492013172 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 395492013173 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 395492013174 putative active site [active] 395492013175 putative metal binding site [ion binding]; other site 395492013176 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 395492013177 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 395492013178 binding surface 395492013179 Tetratricopeptide repeat; Region: TPR_16; pfam13432 395492013180 TPR motif; other site 395492013181 RNA polymerase sigma factor; Provisional; Region: PRK12547 395492013182 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395492013183 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 395492013184 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 395492013185 2-isopropylmalate synthase; Validated; Region: PRK03739 395492013186 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 395492013187 active site 395492013188 catalytic residues [active] 395492013189 metal binding site [ion binding]; metal-binding site 395492013190 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 395492013191 Uncharacterized protein involved in benzoate metabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BenE; COG3135 395492013192 benzoate transporter; Region: benE; TIGR00843 395492013193 ATP-dependent Clp protease proteolytic subunit; Reviewed; Region: PRK12553 395492013194 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 395492013195 oligomer interface [polypeptide binding]; other site 395492013196 active site residues [active] 395492013197 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; cl01353 395492013198 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 395492013199 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 395492013200 Cation efflux family; Region: Cation_efflux; cl00316 395492013201 Uncharacterized conserved protein (DUF2161); Region: DUF2161; cl02298 395492013202 anthranilate synthase; Provisional; Region: PRK13566 395492013203 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 395492013204 chorismate binding enzyme; Region: Chorismate_bind; cl10555 395492013205 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 395492013206 glutamine binding [chemical binding]; other site 395492013207 catalytic triad [active] 395492013208 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 395492013209 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 395492013210 N-terminal plug; other site 395492013211 ligand-binding site [chemical binding]; other site 395492013212 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 395492013213 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 395492013214 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 395492013215 Potassium binding sites [ion binding]; other site 395492013216 Cesium cation binding sites [ion binding]; other site 395492013217 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 395492013218 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 395492013219 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 395492013220 Autoinducer binding domain; Region: Autoind_bind; pfam03472 395492013221 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 395492013222 DNA binding residues [nucleotide binding] 395492013223 dimerization interface [polypeptide binding]; other site 395492013224 PAS fold; Region: PAS_3; pfam08447 395492013225 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; cl11978 395492013226 thymidine kinase; Provisional; Region: PRK04296 395492013227 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 395492013228 NMT1-like family; Region: NMT1_2; cl15260 395492013229 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492013230 dimer interface [polypeptide binding]; other site 395492013231 conserved gate region; other site 395492013232 putative PBP binding loops; other site 395492013233 ABC-ATPase subunit interface; other site 395492013234 choline ABC transporter, ATP-binding protein; Region: ABC_choXWV_ATP; TIGR03415 395492013235 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492013236 Walker A/P-loop; other site 395492013237 ATP binding site [chemical binding]; other site 395492013238 Q-loop/lid; other site 395492013239 ABC transporter signature motif; other site 395492013240 Walker B; other site 395492013241 D-loop; other site 395492013242 H-loop/switch region; other site 395492013243 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 395492013244 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 395492013245 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 395492013246 dimerization interface [polypeptide binding]; other site 395492013247 putative DNA binding site [nucleotide binding]; other site 395492013248 putative Zn2+ binding site [ion binding]; other site 395492013249 omega amino acid--pyruvate transaminase; Provisional; Region: PRK13360 395492013250 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 395492013251 inhibitor-cofactor binding pocket; inhibition site 395492013252 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492013253 catalytic residue [active] 395492013254 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 395492013255 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395492013256 Zn2+ binding site [ion binding]; other site 395492013257 Mg2+ binding site [ion binding]; other site 395492013258 leucine ABC transporter subunit substrate-binding protein LivK; Provisional; Region: PRK15404 395492013259 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 395492013260 dimerization interface [polypeptide binding]; other site 395492013261 ligand binding site [chemical binding]; other site 395492013262 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 395492013263 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 395492013264 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 395492013265 active site 395492013266 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 395492013267 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu; cd11330 395492013268 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 395492013269 active site 395492013270 catalytic site [active] 395492013271 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 395492013272 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 395492013273 peptide binding site [polypeptide binding]; other site 395492013274 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 395492013275 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492013276 dimer interface [polypeptide binding]; other site 395492013277 conserved gate region; other site 395492013278 putative PBP binding loops; other site 395492013279 ABC-ATPase subunit interface; other site 395492013280 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 395492013281 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 395492013282 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492013283 dimer interface [polypeptide binding]; other site 395492013284 conserved gate region; other site 395492013285 putative PBP binding loops; other site 395492013286 ABC-ATPase subunit interface; other site 395492013287 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 395492013288 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395492013289 Walker A/P-loop; other site 395492013290 ATP binding site [chemical binding]; other site 395492013291 Q-loop/lid; other site 395492013292 ABC transporter signature motif; other site 395492013293 Walker B; other site 395492013294 D-loop; other site 395492013295 H-loop/switch region; other site 395492013296 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395492013297 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 395492013298 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395492013299 Walker A/P-loop; other site 395492013300 ATP binding site [chemical binding]; other site 395492013301 Q-loop/lid; other site 395492013302 ABC transporter signature motif; other site 395492013303 Walker B; other site 395492013304 D-loop; other site 395492013305 H-loop/switch region; other site 395492013306 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395492013307 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 395492013308 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 395492013309 substrate binding site [chemical binding]; other site 395492013310 ATP binding site [chemical binding]; other site 395492013311 Protein of unknown function (DUF2735); Region: DUF2735; pfam10931 395492013312 glutamine synthetase; Region: PLN02284 395492013313 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 395492013314 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 395492013315 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395492013316 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 395492013317 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395492013318 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 395492013319 Transcriptional regulators [Transcription]; Region: MarR; COG1846 395492013320 Helix-turn-helix domains; Region: HTH; cl00088 395492013321 GTP-binding protein Der; Reviewed; Region: PRK00093 395492013322 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 395492013323 G1 box; other site 395492013324 GTP/Mg2+ binding site [chemical binding]; other site 395492013325 Switch I region; other site 395492013326 G2 box; other site 395492013327 Switch II region; other site 395492013328 G3 box; other site 395492013329 G4 box; other site 395492013330 G5 box; other site 395492013331 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 395492013332 G1 box; other site 395492013333 GTP/Mg2+ binding site [chemical binding]; other site 395492013334 Switch I region; other site 395492013335 G2 box; other site 395492013336 G3 box; other site 395492013337 Switch II region; other site 395492013338 G4 box; other site 395492013339 G5 box; other site 395492013340 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 395492013341 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 395492013342 Phospholipid methyltransferase; Region: PEMT; cl00763 395492013343 Putative catalytic domain of uncharacterized bacterial hypothetical proteins similar to insect chitin deacetylase-like proteins; Region: CE4_CDA_like_3; cd10976 395492013344 NodB motif; other site 395492013345 putative active site [active] 395492013346 putative catalytic site [active] 395492013347 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 395492013348 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 395492013349 Helix-turn-helix domains; Region: HTH; cl00088 395492013350 Methionine Aminopeptidase 1. E.C. 3.4.11.18. Also known as methionyl aminopeptidase and Peptidase M. Catalyzes release of N-terminal amino acids, preferentially methionine, from peptides and arylamides; Region: MetAP1; cd01086 395492013351 active site 395492013352 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 395492013353 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 395492013354 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 395492013355 GIY-YIG motif/motif A; other site 395492013356 putative active site [active] 395492013357 putative metal binding site [ion binding]; other site 395492013358 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_3; cd08896 395492013359 putative hydrophobic ligand binding site [chemical binding]; other site 395492013360 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 395492013361 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395492013362 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 395492013363 YCII-related domain; Region: YCII; cl00999 395492013364 glycerol kinase; Provisional; Region: glpK; PRK00047 395492013365 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 395492013366 N- and C-terminal domain interface [polypeptide binding]; other site 395492013367 active site 395492013368 MgATP binding site [chemical binding]; other site 395492013369 catalytic site [active] 395492013370 metal binding site [ion binding]; metal-binding site 395492013371 glycerol binding site [chemical binding]; other site 395492013372 homotetramer interface [polypeptide binding]; other site 395492013373 homodimer interface [polypeptide binding]; other site 395492013374 FBP binding site [chemical binding]; other site 395492013375 protein IIAGlc interface [polypeptide binding]; other site 395492013376 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492013377 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 395492013378 NAD(P) binding site [chemical binding]; other site 395492013379 active site 395492013380 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 395492013381 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 395492013382 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 395492013383 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 395492013384 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 395492013385 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 395492013386 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 395492013387 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 395492013388 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 395492013389 XdhC Rossmann domain; Region: XdhC_C; pfam13478 395492013390 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 395492013391 Helix-turn-helix domains; Region: HTH; cl00088 395492013392 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 395492013393 dimerization interface [polypeptide binding]; other site 395492013394 substrate binding pocket [chemical binding]; other site 395492013395 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E_like proteins; Region: GAT1_Peptidase_E_like; cd03129 395492013396 catalytic triad [active] 395492013397 active site nucleophile [active] 395492013398 Predicted membrane protein [Function unknown]; Region: COG3748 395492013399 Protein of unknown function (DUF989); Region: DUF989; pfam06181 395492013400 Cytochrome c; Region: Cytochrom_C; cl11414 395492013401 guanine deaminase; Provisional; Region: PRK09228 395492013402 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 395492013403 active site 395492013404 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 395492013405 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 395492013406 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 395492013407 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 395492013408 phosphate binding site [ion binding]; other site 395492013409 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 395492013410 active site 395492013411 hypothetical protein; Provisional; Region: PRK12361 395492013412 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 395492013413 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 395492013414 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395492013415 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 395492013416 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 395492013417 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 395492013418 Protein of unknown function (DUF1449); Region: DUF1449; pfam07290 395492013419 Band_7_flotillin: a subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 395492013420 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 395492013421 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 395492013422 active site 395492013423 metal binding site [ion binding]; metal-binding site 395492013424 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 395492013425 active site 395492013426 homotetramer interface [polypeptide binding]; other site 395492013427 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; cl01250 395492013428 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 395492013429 Protein of unknown function DUF86; Region: DUF86; cl01031 395492013430 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 395492013431 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 395492013432 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 395492013433 active site 395492013434 catalytic site [active] 395492013435 tetramer interface [polypeptide binding]; other site 395492013436 Protein of unknown function (DUF1045); Region: DUF1045; cl15435 395492013437 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492013438 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 395492013439 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 395492013440 PAS domain S-box; Region: sensory_box; TIGR00229 395492013441 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395492013442 putative active site [active] 395492013443 heme pocket [chemical binding]; other site 395492013444 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 395492013445 PAS fold; Region: PAS_7; pfam12860 395492013446 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 395492013447 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 395492013448 dimer interface [polypeptide binding]; other site 395492013449 phosphorylation site [posttranslational modification] 395492013450 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 395492013451 ATP binding site [chemical binding]; other site 395492013452 Mg2+ binding site [ion binding]; other site 395492013453 G-X-G motif; other site 395492013454 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395492013455 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492013456 active site 395492013457 phosphorylation site [posttranslational modification] 395492013458 intermolecular recognition site; other site 395492013459 dimerization interface [polypeptide binding]; other site 395492013460 Response regulator receiver domain; Region: Response_reg; pfam00072 395492013461 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492013462 active site 395492013463 phosphorylation site [posttranslational modification] 395492013464 intermolecular recognition site; other site 395492013465 dimerization interface [polypeptide binding]; other site 395492013466 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 395492013467 helicase 45; Provisional; Region: PTZ00424 395492013468 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 395492013469 ATP binding site [chemical binding]; other site 395492013470 Mg++ binding site [ion binding]; other site 395492013471 motif III; other site 395492013472 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 395492013473 nucleotide binding region [chemical binding]; other site 395492013474 ATP-binding site [chemical binding]; other site 395492013475 Cupin domain; Region: Cupin_2; cl09118 395492013476 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 395492013477 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395492013478 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 395492013479 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 395492013480 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 395492013481 EamA-like transporter family; Region: EamA; cl01037 395492013482 EamA-like transporter family; Region: EamA; cl01037 395492013483 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 395492013484 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 395492013485 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 395492013486 Uncharacterized conserved protein [Function unknown]; Region: COG2308 395492013487 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; pfam04174 395492013488 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; cl00980 395492013489 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 395492013490 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 395492013491 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 395492013492 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 395492013493 short chain dehydrogenase; Provisional; Region: PRK07576 395492013494 classical (c) SDRs; Region: SDR_c; cd05233 395492013495 NAD(P) binding site [chemical binding]; other site 395492013496 active site 395492013497 Helix-turn-helix domains; Region: HTH; cl00088 395492013498 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395492013499 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395492013500 EamA-like transporter family; Region: EamA; cl01037 395492013501 EamA-like transporter family; Region: EamA; cl01037 395492013502 Dehydratase family; Region: ILVD_EDD; cl00340 395492013503 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 395492013504 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395492013505 NAD(P) binding site [chemical binding]; other site 395492013506 catalytic residues [active] 395492013507 Uncharacterized protein conserved in bacteria [Function unknown]; Region: GguC; COG3802 395492013508 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 395492013509 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 395492013510 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 395492013511 TM-ABC transporter signature motif; other site 395492013512 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 395492013513 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 395492013514 Walker A/P-loop; other site 395492013515 ATP binding site [chemical binding]; other site 395492013516 Q-loop/lid; other site 395492013517 ABC transporter signature motif; other site 395492013518 Walker B; other site 395492013519 D-loop; other site 395492013520 H-loop/switch region; other site 395492013521 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 395492013522 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 395492013523 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 395492013524 putative ligand binding site [chemical binding]; other site 395492013525 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395492013526 Helix-turn-helix domains; Region: HTH; cl00088 395492013527 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 395492013528 putative dimerization interface [polypeptide binding]; other site 395492013529 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492013530 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 395492013531 NMT1-like family; Region: NMT1_2; cl15260 395492013532 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 395492013533 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 395492013534 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 395492013535 metal binding site [ion binding]; metal-binding site 395492013536 substrate binding pocket [chemical binding]; other site 395492013537 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR9; cd08274 395492013538 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 395492013539 putative NAD(P) binding site [chemical binding]; other site 395492013540 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 395492013541 Helix-turn-helix domains; Region: HTH; cl00088 395492013542 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 395492013543 dimerization interface [polypeptide binding]; other site 395492013544 substrate binding pocket [chemical binding]; other site 395492013545 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 395492013546 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395492013547 Helix-turn-helix domains; Region: HTH; cl00088 395492013548 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 395492013549 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 395492013550 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 395492013551 D-xylose ABC transporter, substrate-binding protein; Region: xylF; TIGR02634 395492013552 putative ligand binding site [chemical binding]; other site 395492013553 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 395492013554 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 395492013555 TM-ABC transporter signature motif; other site 395492013556 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 395492013557 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 395492013558 Walker A/P-loop; other site 395492013559 ATP binding site [chemical binding]; other site 395492013560 Q-loop/lid; other site 395492013561 ABC transporter signature motif; other site 395492013562 Walker B; other site 395492013563 D-loop; other site 395492013564 H-loop/switch region; other site 395492013565 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 395492013566 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395492013567 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 395492013568 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395492013569 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395492013570 Helix-turn-helix domains; Region: HTH; cl00088 395492013571 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 395492013572 putative effector binding pocket; other site 395492013573 putative dimerization interface [polypeptide binding]; other site 395492013574 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395492013575 Coenzyme A binding pocket [chemical binding]; other site 395492013576 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 395492013577 Peptidase M15; Region: Peptidase_M15_3; cl01194 395492013578 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3779 395492013579 Uncharacterized protein conserved in bacteria (DUF2314); Region: DUF2314; pfam10077 395492013580 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 395492013581 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; cl01153 395492013582 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 395492013583 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 395492013584 [4Fe-4S] binding site [ion binding]; other site 395492013585 molybdopterin cofactor binding site; other site 395492013586 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 395492013587 molybdopterin cofactor binding site; other site 395492013588 NapD protein; Region: NapD; cl01163 395492013589 ferredoxin-type protein; Provisional; Region: PRK10194 395492013590 4Fe-4S binding domain; Region: Fer4; cl02805 395492013591 Periplasmic nitrate reductase protein NapE; Region: NapE; cl01848 395492013592 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 395492013593 TM-ABC transporter signature motif; other site 395492013594 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 395492013595 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 395492013596 Walker A/P-loop; other site 395492013597 ATP binding site [chemical binding]; other site 395492013598 Q-loop/lid; other site 395492013599 ABC transporter signature motif; other site 395492013600 Walker B; other site 395492013601 D-loop; other site 395492013602 H-loop/switch region; other site 395492013603 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395492013604 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492013605 NAD(P) binding site [chemical binding]; other site 395492013606 active site 395492013607 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492013608 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 395492013609 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 395492013610 ligand binding site [chemical binding]; other site 395492013611 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 395492013612 Helix-turn-helix domains; Region: HTH; cl00088 395492013613 The C-terminal substrate-domain of LysR-type transcriptional regulators for beta-lactamase genes, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_beta_lactamase; cd08484 395492013614 putative dimerization interface [polypeptide binding]; other site 395492013615 putative substrate binding pocket [chemical binding]; other site 395492013616 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 395492013617 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492013618 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 395492013619 NAD(P) binding site [chemical binding]; other site 395492013620 active site 395492013621 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 395492013622 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 395492013623 active site 395492013624 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 395492013625 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 395492013626 active site 395492013627 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 395492013628 S-adenosylmethionine binding site [chemical binding]; other site 395492013629 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 395492013630 putative active site [active] 395492013631 putative metal binding site [ion binding]; other site 395492013632 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 395492013633 active site 395492013634 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 395492013635 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 395492013636 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492013637 Walker A/P-loop; other site 395492013638 ATP binding site [chemical binding]; other site 395492013639 Q-loop/lid; other site 395492013640 ABC transporter signature motif; other site 395492013641 Walker B; other site 395492013642 D-loop; other site 395492013643 H-loop/switch region; other site 395492013644 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 395492013645 active site 395492013646 Uncharacterized conserved protein [Function unknown]; Region: COG3482 395492013647 Uncharacterized conserved protein [Function unknown]; Region: COG1944 395492013648 bacteriocin biosynthesis docking scaffold, SagD family; Region: docking_ocin; cl09146 395492013649 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 395492013650 non-specific DNA binding site [nucleotide binding]; other site 395492013651 salt bridge; other site 395492013652 sequence-specific DNA binding site [nucleotide binding]; other site 395492013653 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 395492013654 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 395492013655 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395492013656 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: GT1_like_7; cd05844 395492013657 putative ADP-binding pocket [chemical binding]; other site 395492013658 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 395492013659 trimer interface [polypeptide binding]; other site 395492013660 CoA binding site [chemical binding]; other site 395492013661 active site 395492013662 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 395492013663 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 395492013664 active site 395492013665 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 395492013666 colanic acid exporter; Provisional; Region: PRK10459 395492013667 MatE; Region: MatE; cl10513 395492013668 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 395492013669 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 395492013670 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 395492013671 active site 395492013672 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 395492013673 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 395492013674 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 395492013675 active site 395492013676 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 395492013677 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 395492013678 active site 395492013679 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 395492013680 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 395492013681 active site 395492013682 Glycosyl transferase 4-like domain; Region: Glyco_trans_4_4; cl15759 395492013683 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 395492013684 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 395492013685 active site 395492013686 catalytic triad [active] 395492013687 oxyanion hole [active] 395492013688 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 395492013689 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395492013690 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395492013691 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 395492013692 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 395492013693 This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain. They export...; Region: ABCC_Protease_Secretion; cd03246 395492013694 Walker A/P-loop; other site 395492013695 ATP binding site [chemical binding]; other site 395492013696 Q-loop/lid; other site 395492013697 ABC transporter signature motif; other site 395492013698 Walker B; other site 395492013699 D-loop; other site 395492013700 H-loop/switch region; other site 395492013701 Right handed beta helix region; Region: Beta_helix; pfam13229 395492013702 Chain length determinant protein; Region: Wzz; cl15801 395492013703 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 395492013704 Chain length determinant protein; Region: Wzz; cl15801 395492013705 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cd01983 395492013706 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 395492013707 Vi polysaccharide export protein VexA; Provisional; Region: PRK15175 395492013708 SLBB domain; Region: SLBB; pfam10531 395492013709 O-Antigen ligase; Region: Wzy_C; cl04850 395492013710 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 395492013711 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 395492013712 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492013713 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 395492013714 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492013715 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 395492013716 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 395492013717 active site 395492013718 metal binding site [ion binding]; metal-binding site 395492013719 KTSC domain; Region: KTSC; pfam13619 395492013720 Predicted esterase [General function prediction only]; Region: COG0400 395492013721 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395492013722 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 395492013723 Zn binding site [ion binding]; other site 395492013724 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 395492013725 Zn binding site [ion binding]; other site 395492013726 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 395492013727 ligand binding site [chemical binding]; other site 395492013728 active site 395492013729 UGI interface [polypeptide binding]; other site 395492013730 catalytic site [active] 395492013731 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 395492013732 ManB is a bacterial phosphomannomutase (PMM) that catalyzes the conversion of mannose 6-phosphate to mannose-1-phosphate in the second of three steps in the GDP-mannose pathway, in which GDP-D-mannose is synthesized from fructose-6-phosphate. In...; Region: ManB; cd03088 395492013733 active site 395492013734 substrate binding site [chemical binding]; other site 395492013735 metal binding site [ion binding]; metal-binding site 395492013736 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 395492013737 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 395492013738 Substrate binding site; other site 395492013739 Cupin domain; Region: Cupin_2; cl09118 395492013740 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 395492013741 putative catalytic site [active] 395492013742 putative metal binding site [ion binding]; other site 395492013743 putative phosphate binding site [ion binding]; other site 395492013744 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395492013745 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 395492013746 putative NAD(P) binding site [chemical binding]; other site 395492013747 active site 395492013748 putative substrate binding site [chemical binding]; other site 395492013749 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11552 395492013750 Helix-turn-helix domains; Region: HTH; cl00088 395492013751 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 395492013752 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 395492013753 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395492013754 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395492013755 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 395492013756 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 395492013757 Walker A/P-loop; other site 395492013758 ATP binding site [chemical binding]; other site 395492013759 Q-loop/lid; other site 395492013760 ABC transporter signature motif; other site 395492013761 Walker B; other site 395492013762 D-loop; other site 395492013763 H-loop/switch region; other site 395492013764 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 395492013765 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492013766 Walker A/P-loop; other site 395492013767 ATP binding site [chemical binding]; other site 395492013768 Q-loop/lid; other site 395492013769 ABC transporter signature motif; other site 395492013770 Walker B; other site 395492013771 D-loop; other site 395492013772 H-loop/switch region; other site 395492013773 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 395492013774 ABC-2 type transporter; Region: ABC2_membrane; cl11417 395492013775 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 395492013776 ABC-2 type transporter; Region: ABC2_membrane; cl11417 395492013777 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 395492013778 EamA-like transporter family; Region: EamA; cl01037 395492013779 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395492013780 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492013781 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 395492013782 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 395492013783 conserved cys residue [active] 395492013784 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 395492013785 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395492013786 Helix-turn-helix domains; Region: HTH; cl00088 395492013787 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 395492013788 apolar tunnel; other site 395492013789 heme binding site [chemical binding]; other site 395492013790 dimerization interface [polypeptide binding]; other site 395492013791 Protein of unknown function (DUF423); Region: DUF423; cl01008 395492013792 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 395492013793 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; cl01811 395492013794 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 395492013795 Gram-negative bacterial tonB protein; Region: TonB; cl10048 395492013796 Hemin uptake protein hemP; Region: hemP; cl10043 395492013797 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 395492013798 Haem utilisation ChuX/HutX; Region: ChuX_HutX; cl01509 395492013799 Haem utilisation ChuX/HutX; Region: ChuX_HutX; cl01509 395492013800 ABC-type hemin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ChuT; COG4558 395492013801 Hemin binding protein HutB. These proteins have been shown to function as initial receptors in ABC transport of hemin and hemoproteins in many eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a...; Region: HutB; cd01149 395492013802 putative hemin binding site; other site 395492013803 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 395492013804 ABC-ATPase subunit interface; other site 395492013805 dimer interface [polypeptide binding]; other site 395492013806 putative PBP binding regions; other site 395492013807 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 395492013808 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 395492013809 Walker A/P-loop; other site 395492013810 ATP binding site [chemical binding]; other site 395492013811 Q-loop/lid; other site 395492013812 ABC transporter signature motif; other site 395492013813 Walker B; other site 395492013814 D-loop; other site 395492013815 H-loop/switch region; other site 395492013816 RNA polymerase sigma factor; Provisional; Region: PRK12516 395492013817 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395492013818 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 395492013819 DNA binding residues [nucleotide binding] 395492013820 two-component response regulator; Provisional; Region: PRK09191 395492013821 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 395492013822 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492013823 active site 395492013824 phosphorylation site [posttranslational modification] 395492013825 intermolecular recognition site; other site 395492013826 dimerization interface [polypeptide binding]; other site 395492013827 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 395492013828 Histidine kinase; Region: HisKA_2; cl06527 395492013829 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 395492013830 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 395492013831 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 395492013832 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 395492013833 homodimer interface [polypeptide binding]; other site 395492013834 active site 395492013835 FMN binding site [chemical binding]; other site 395492013836 substrate binding site [chemical binding]; other site 395492013837 4Fe-4S binding domain; Region: Fer4; cl02805 395492013838 4Fe-4S binding domain; Region: Fer4; cl02805 395492013839 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 395492013840 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 395492013841 conserved cys residue [active] 395492013842 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395492013843 Member of the Rhodanese Homology Domain superfamily. This CD includes the putative rhodanese-like protein, Psp2, of Yersinia pestis biovar Medievalis and other similar uncharacterized proteins; Region: RHOD_PspE2; cd01521 395492013844 active site residue [active] 395492013845 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 395492013846 heme binding pocket [chemical binding]; other site 395492013847 heme ligand [chemical binding]; other site 395492013848 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 395492013849 GAF domain; Region: GAF; cl15785 395492013850 Phytochrome region; Region: PHY; pfam00360 395492013851 Histidine kinase; Region: HisKA_2; cl06527 395492013852 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492013853 active site 395492013854 phosphorylation site [posttranslational modification] 395492013855 intermolecular recognition site; other site 395492013856 dimerization interface [polypeptide binding]; other site 395492013857 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 395492013858 Helix-turn-helix domains; Region: HTH; cl00088 395492013859 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 395492013860 allantoate amidohydrolase; Reviewed; Region: PRK12893 395492013861 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 395492013862 active site 395492013863 metal binding site [ion binding]; metal-binding site 395492013864 dimer interface [polypeptide binding]; other site 395492013865 phenylhydantoinase; Validated; Region: PRK08323 395492013866 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 395492013867 tetramer interface [polypeptide binding]; other site 395492013868 active site 395492013869 Cupin domain; Region: Cupin_2; cl09118 395492013870 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 395492013871 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 395492013872 Walker A/P-loop; other site 395492013873 ATP binding site [chemical binding]; other site 395492013874 Q-loop/lid; other site 395492013875 ABC transporter signature motif; other site 395492013876 Walker B; other site 395492013877 D-loop; other site 395492013878 H-loop/switch region; other site 395492013879 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 395492013880 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 395492013881 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 395492013882 NMT1/THI5 like; Region: NMT1; pfam09084 395492013883 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl15306 395492013884 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395492013885 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395492013886 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 395492013887 ABC-2 type transporter; Region: ABC2_membrane; cl11417 395492013888 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492013889 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 395492013890 UreF; Region: UreF; pfam01730 395492013891 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cl03727 395492013892 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 395492013893 dimer interface [polypeptide binding]; other site 395492013894 catalytic residues [active] 395492013895 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395492013896 metal binding site [ion binding]; metal-binding site 395492013897 active site 395492013898 I-site; other site 395492013899 Protein of unknown function (DUF2459); Region: DUF2459; cl09819 395492013900 urease subunit alpha; Reviewed; Region: ureC; PRK13207 395492013901 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 395492013902 subunit interactions [polypeptide binding]; other site 395492013903 active site 395492013904 flap region; other site 395492013905 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 395492013906 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 395492013907 gamma-beta subunit interface [polypeptide binding]; other site 395492013908 alpha-beta subunit interface [polypeptide binding]; other site 395492013909 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 395492013910 Protein of unknown function (DUF1272); Region: DUF1272; pfam06906 395492013911 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 395492013912 alpha-gamma subunit interface [polypeptide binding]; other site 395492013913 beta-gamma subunit interface [polypeptide binding]; other site 395492013914 UreD urease accessory protein; Region: UreD; cl00530 395492013915 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 395492013916 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 395492013917 Walker A/P-loop; other site 395492013918 ATP binding site [chemical binding]; other site 395492013919 Q-loop/lid; other site 395492013920 ABC transporter signature motif; other site 395492013921 Walker B; other site 395492013922 D-loop; other site 395492013923 H-loop/switch region; other site 395492013924 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 395492013925 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 395492013926 Walker A/P-loop; other site 395492013927 ATP binding site [chemical binding]; other site 395492013928 Q-loop/lid; other site 395492013929 ABC transporter signature motif; other site 395492013930 Walker B; other site 395492013931 D-loop; other site 395492013932 H-loop/switch region; other site 395492013933 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 395492013934 TM-ABC transporter signature motif; other site 395492013935 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 395492013936 TM-ABC transporter signature motif; other site 395492013937 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 395492013938 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 395492013939 putative ligand binding site [chemical binding]; other site 395492013940 PAP2, bacterial acid phosphatase or class A non-specific acid phosphatases. These enzymes catalyze phosphomonoester hydrolysis, with optimal activity in low pH conditions. They are secreted into the periplasmic space, and their physiological role remains...; Region: PAP2_acid_phosphatase; cd03397 395492013941 active site 395492013942 AIDA autotransporter-like protein ShdA; Provisional; Region: PRK15319 395492013943 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 395492013944 Sodium:solute symporter family; Region: SSF; cl00456 395492013945 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 395492013946 dimer interface [polypeptide binding]; other site 395492013947 phosphorylation site [posttranslational modification] 395492013948 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 395492013949 ATP binding site [chemical binding]; other site 395492013950 Mg2+ binding site [ion binding]; other site 395492013951 G-X-G motif; other site 395492013952 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395492013953 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492013954 active site 395492013955 phosphorylation site [posttranslational modification] 395492013956 intermolecular recognition site; other site 395492013957 dimerization interface [polypeptide binding]; other site 395492013958 Response regulator receiver domain; Region: Response_reg; pfam00072 395492013959 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492013960 active site 395492013961 phosphorylation site [posttranslational modification] 395492013962 intermolecular recognition site; other site 395492013963 dimerization interface [polypeptide binding]; other site 395492013964 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 395492013965 DNA binding residues [nucleotide binding] 395492013966 dimerization interface [polypeptide binding]; other site 395492013967 leucine ABC transporter subunit substrate-binding protein LivK; Provisional; Region: PRK15404 395492013968 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 395492013969 dimerization interface [polypeptide binding]; other site 395492013970 ligand binding site [chemical binding]; other site 395492013971 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 395492013972 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 395492013973 Walker A/P-loop; other site 395492013974 ATP binding site [chemical binding]; other site 395492013975 Q-loop/lid; other site 395492013976 ABC transporter signature motif; other site 395492013977 Walker B; other site 395492013978 D-loop; other site 395492013979 H-loop/switch region; other site 395492013980 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 395492013981 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 395492013982 Walker A/P-loop; other site 395492013983 ATP binding site [chemical binding]; other site 395492013984 Q-loop/lid; other site 395492013985 ABC transporter signature motif; other site 395492013986 Walker B; other site 395492013987 D-loop; other site 395492013988 H-loop/switch region; other site 395492013989 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 395492013990 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 395492013991 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 395492013992 TM-ABC transporter signature motif; other site 395492013993 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 395492013994 TM-ABC transporter signature motif; other site 395492013995 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in cysteine...; Region: CysQ; cd01638 395492013996 active site 395492013997 Bacterial sugar transferase; Region: Bac_transf; cl00939 395492013998 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 395492013999 Paraquat-inducible protein A; Region: PqiA; pfam04403 395492014000 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395492014001 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 395492014002 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492014003 active site 395492014004 phosphorylation site [posttranslational modification] 395492014005 intermolecular recognition site; other site 395492014006 dimerization interface [polypeptide binding]; other site 395492014007 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 395492014008 DNA binding site [nucleotide binding] 395492014009 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492014010 Response regulator receiver domain; Region: Response_reg; pfam00072 395492014011 active site 395492014012 phosphorylation site [posttranslational modification] 395492014013 intermolecular recognition site; other site 395492014014 dimerization interface [polypeptide binding]; other site 395492014015 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5385 395492014016 Protein of unknown function (DUF1134); Region: DUF1134; cl02235 395492014017 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 395492014018 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 395492014019 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 395492014020 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 395492014021 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 395492014022 RNA binding surface [nucleotide binding]; other site 395492014023 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 395492014024 active site 395492014025 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 395492014026 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 395492014027 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395492014028 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 395492014029 DNA binding residues [nucleotide binding] 395492014030 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 395492014031 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 395492014032 GDP-binding site [chemical binding]; other site 395492014033 ACT binding site; other site 395492014034 IMP binding site; other site 395492014035 EamA-like transporter family; Region: EamA; cl01037 395492014036 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 395492014037 EamA-like transporter family; Region: EamA; cl01037 395492014038 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395492014039 Coenzyme A binding pocket [chemical binding]; other site 395492014040 putative diguanylate cyclase; Provisional; Region: PRK09776 395492014041 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395492014042 metal binding site [ion binding]; metal-binding site 395492014043 active site 395492014044 I-site; other site 395492014045 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 395492014046 Dehydratase family; Region: ILVD_EDD; cl00340 395492014047 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 395492014048 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492014049 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 395492014050 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395492014051 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395492014052 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395492014053 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 395492014054 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395492014055 Helix-turn-helix domains; Region: HTH; cl00088 395492014056 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 395492014057 putative effector binding pocket; other site 395492014058 putative dimerization interface [polypeptide binding]; other site 395492014059 short chain dehydrogenase; Provisional; Region: PRK12939 395492014060 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 395492014061 NADP binding site [chemical binding]; other site 395492014062 homodimer interface [polypeptide binding]; other site 395492014063 active site 395492014064 substrate binding site [chemical binding]; other site 395492014065 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395492014066 Helix-turn-helix domains; Region: HTH; cl00088 395492014067 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 395492014068 putative effector binding pocket; other site 395492014069 putative dimerization interface [polypeptide binding]; other site 395492014070 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 395492014071 active site 395492014072 DNA binding site [nucleotide binding] 395492014073 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395492014074 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 395492014075 putative substrate translocation pore; other site 395492014076 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 395492014077 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395492014078 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395492014079 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 395492014080 Helix-turn-helix domains; Region: HTH; cl00088 395492014081 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 395492014082 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395492014083 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395492014084 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395492014085 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 395492014086 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 395492014087 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 395492014088 active site 395492014089 metal binding site [ion binding]; metal-binding site 395492014090 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 395492014091 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 395492014092 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 395492014093 active site 395492014094 Predicted transcriptional regulator [Transcription]; Region: COG1959 395492014095 Helix-turn-helix domains; Region: HTH; cl00088 395492014096 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492014097 NAD(P) binding site [chemical binding]; other site 395492014098 active site 395492014099 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 395492014100 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 395492014101 DNA interaction; other site 395492014102 Metal-binding active site; metal-binding site 395492014103 AP (apurinic/apyrimidinic) site pocket; other site 395492014104 Cupin domain; Region: Cupin_2; cl09118 395492014105 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395492014106 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395492014107 Walker A/P-loop; other site 395492014108 ATP binding site [chemical binding]; other site 395492014109 Q-loop/lid; other site 395492014110 ABC transporter signature motif; other site 395492014111 Walker B; other site 395492014112 D-loop; other site 395492014113 H-loop/switch region; other site 395492014114 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395492014115 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492014116 dimer interface [polypeptide binding]; other site 395492014117 conserved gate region; other site 395492014118 putative PBP binding loops; other site 395492014119 ABC-ATPase subunit interface; other site 395492014120 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 395492014121 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 395492014122 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395492014123 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492014124 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 395492014125 non-specific DNA interactions [nucleotide binding]; other site 395492014126 DNA binding site [nucleotide binding] 395492014127 sequence specific DNA binding site [nucleotide binding]; other site 395492014128 putative cAMP binding site [chemical binding]; other site 395492014129 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 395492014130 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 395492014131 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395492014132 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492014133 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492014134 dimer interface [polypeptide binding]; other site 395492014135 conserved gate region; other site 395492014136 putative PBP binding loops; other site 395492014137 ABC-ATPase subunit interface; other site 395492014138 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492014139 dimer interface [polypeptide binding]; other site 395492014140 conserved gate region; other site 395492014141 putative PBP binding loops; other site 395492014142 ABC-ATPase subunit interface; other site 395492014143 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 395492014144 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 395492014145 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 395492014146 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 395492014147 Ribokinase-like subgroup A. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_A; cd01942 395492014148 substrate binding site [chemical binding]; other site 395492014149 ATP binding site [chemical binding]; other site 395492014150 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395492014151 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395492014152 Walker A/P-loop; other site 395492014153 ATP binding site [chemical binding]; other site 395492014154 Q-loop/lid; other site 395492014155 ABC transporter signature motif; other site 395492014156 Walker B; other site 395492014157 D-loop; other site 395492014158 H-loop/switch region; other site 395492014159 TOBE domain; Region: TOBE_2; cl01440 395492014160 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 395492014161 active site 395492014162 catalytic residues [active] 395492014163 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 395492014164 MatE; Region: MatE; cl10513 395492014165 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 395492014166 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395492014167 putative ADP-binding pocket [chemical binding]; other site 395492014168 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 395492014169 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 395492014170 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 395492014171 ligand binding site [chemical binding]; other site 395492014172 flexible hinge region; other site 395492014173 Helix-turn-helix domains; Region: HTH; cl00088 395492014174 Bacterial sugar transferase; Region: Bac_transf; cl00939 395492014175 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 395492014176 Chain length determinant protein; Region: Wzz; cl15801 395492014177 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 395492014178 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 395492014179 Nucleotide binding site [chemical binding]; other site 395492014180 P loop; other site 395492014181 DTAP/Switch II; other site 395492014182 Switch I; other site 395492014183 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 395492014184 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 395492014185 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 395492014186 SLBB domain; Region: SLBB; pfam10531 395492014187 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 395492014188 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 395492014189 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 395492014190 active site 395492014191 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 395492014192 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 395492014193 CRP/FNR family transcriptional regulator; Provisional; Region: PRK13918 395492014194 ligand binding site [chemical binding]; other site 395492014195 flexible hinge region; other site 395492014196 Helix-turn-helix domains; Region: HTH; cl00088 395492014197 Bacterial sugar transferase; Region: Bac_transf; cl00939 395492014198 OpgC protein; Region: OpgC_C; cl00792 395492014199 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 395492014200 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 395492014201 Trp docking motif [polypeptide binding]; other site 395492014202 putative active site [active] 395492014203 cyclase homology domain; Region: CHD; cd07302 395492014204 nucleotidyl binding site; other site 395492014205 metal binding site [ion binding]; metal-binding site 395492014206 dimer interface [polypeptide binding]; other site 395492014207 TolB amino-terminal domain; Region: TolB_N; cl00639 395492014208 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 395492014209 TPR motif; other site 395492014210 TPR repeat; Region: TPR_11; pfam13414 395492014211 binding surface 395492014212 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 395492014213 binding surface 395492014214 TPR motif; other site 395492014215 Tetratricopeptide repeat; Region: TPR_16; pfam13432 395492014216 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 395492014217 binding surface 395492014218 TPR motif; other site 395492014219 Protein of unknown function (DUF808); Region: DUF808; cl01002 395492014220 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 395492014221 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 395492014222 RNA binding surface [nucleotide binding]; other site 395492014223 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 395492014224 active site 395492014225 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 395492014226 active site 395492014227 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 395492014228 transmembrane helices; other site 395492014229 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 395492014230 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 395492014231 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 395492014232 ATP binding site [chemical binding]; other site 395492014233 active site 395492014234 substrate binding site [chemical binding]; other site 395492014235 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395492014236 Helix-turn-helix domains; Region: HTH; cl00088 395492014237 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 395492014238 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395492014239 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395492014240 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 395492014241 Protein export membrane protein; Region: SecD_SecF; cl14618 395492014242 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 395492014243 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395492014244 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395492014245 DNA binding site [nucleotide binding] 395492014246 domain linker motif; other site 395492014247 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 395492014248 dimerization interface [polypeptide binding]; other site 395492014249 ligand binding site [chemical binding]; other site 395492014250 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 395492014251 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492014252 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492014253 dimer interface [polypeptide binding]; other site 395492014254 conserved gate region; other site 395492014255 putative PBP binding loops; other site 395492014256 ABC-ATPase subunit interface; other site 395492014257 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492014258 dimer interface [polypeptide binding]; other site 395492014259 conserved gate region; other site 395492014260 putative PBP binding loops; other site 395492014261 ABC-ATPase subunit interface; other site 395492014262 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 395492014263 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492014264 Walker A/P-loop; other site 395492014265 ATP binding site [chemical binding]; other site 395492014266 Q-loop/lid; other site 395492014267 ABC transporter signature motif; other site 395492014268 Walker B; other site 395492014269 D-loop; other site 395492014270 H-loop/switch region; other site 395492014271 nuc_hydro: Nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes vary in their substrate specificity. This group contains eukaryotic, bacterial and archeal...; Region: nuc_hydro; cl00226 395492014272 active site 395492014273 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 395492014274 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 395492014275 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 395492014276 active site 395492014277 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 395492014278 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 395492014279 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 395492014280 metal binding site [ion binding]; metal-binding site 395492014281 putative dimer interface [polypeptide binding]; other site 395492014282 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 395492014283 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 395492014284 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 395492014285 NMT1-like family; Region: NMT1_2; cl15260 395492014286 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 395492014287 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492014288 active site 395492014289 phosphorylation site [posttranslational modification] 395492014290 intermolecular recognition site; other site 395492014291 dimerization interface [polypeptide binding]; other site 395492014292 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 395492014293 Walker A motif; other site 395492014294 ATP binding site [chemical binding]; other site 395492014295 Walker B motif; other site 395492014296 arginine finger; other site 395492014297 Helix-turn-helix domains; Region: HTH; cl00088 395492014298 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 395492014299 Protein of unknown function (DUF3550/UPF0682); Region: DUF3550; pfam12070 395492014300 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 395492014301 dimer interface [polypeptide binding]; other site 395492014302 phosphorylation site [posttranslational modification] 395492014303 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 395492014304 ATP binding site [chemical binding]; other site 395492014305 Mg2+ binding site [ion binding]; other site 395492014306 G-X-G motif; other site 395492014307 bacterial and archael members of the sulfite oxidase (SO) family of molybdopterin binding domains. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and...; Region: arch_bact_SO_family_Moco; cd02109 395492014308 Moco binding site; other site 395492014309 metal coordination site [ion binding]; other site 395492014310 Probable cobalt transporter subunit (CbtA); Region: CbtA; cl02266 395492014311 Probable cobalt transporter subunit (CbtB); Region: CbtB; cl09723 395492014312 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 395492014313 catalytic core [active] 395492014314 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395492014315 metal binding site [ion binding]; metal-binding site 395492014316 active site 395492014317 I-site; other site 395492014318 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 395492014319 Phosphate transporter family; Region: PHO4; cl00396 395492014320 Phosphate transporter family; Region: PHO4; cl00396 395492014321 Acetokinase family; Region: Acetate_kinase; cl01029 395492014322 acetate kinase; Region: ackA; TIGR00016 395492014323 putative phosphoketolase; Provisional; Region: PRK05261 395492014324 Thiamine pyrophosphate (TPP) family, Phosphoketolase (PK) subfamily, TPP-binding module; PK catalyzes the conversion of D-xylulose 5-phosphate and phosphate to acetyl phosphate, D-glyceraldehyde-3-phosphate and H2O. This enzyme requires divalent...; Region: TPP_PK; cd02011 395492014325 TPP-binding site; other site 395492014326 D-xylulose 5-phosphate/D-fructose 6-phosphate phosphoketolase; Region: XFP; pfam03894 395492014327 XFP C-terminal domain; Region: XFP_C; pfam09363 395492014328 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 395492014329 Cupin domain; Region: Cupin_2; cl09118 395492014330 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395492014331 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 395492014332 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492014333 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 395492014334 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 395492014335 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 395492014336 TM-ABC transporter signature motif; other site 395492014337 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 395492014338 TM-ABC transporter signature motif; other site 395492014339 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 395492014340 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 395492014341 Walker A/P-loop; other site 395492014342 ATP binding site [chemical binding]; other site 395492014343 Q-loop/lid; other site 395492014344 ABC transporter signature motif; other site 395492014345 Walker B; other site 395492014346 D-loop; other site 395492014347 H-loop/switch region; other site 395492014348 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 395492014349 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 395492014350 Walker A/P-loop; other site 395492014351 ATP binding site [chemical binding]; other site 395492014352 Q-loop/lid; other site 395492014353 ABC transporter signature motif; other site 395492014354 Walker B; other site 395492014355 D-loop; other site 395492014356 H-loop/switch region; other site 395492014357 VCBS repeat; Region: VCBS_repeat; TIGR01965 395492014358 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 395492014359 tRNA methyl transferase. This family represents tRNA(5-methylaminomethyl-2-thiouridine)-methyltransferase which is involved in the biosynthesis of the modified nucleoside 5-methylaminomethyl-2-thiouridine present in the wobble position of some tRNAs; Region: tRNA_Me_trans; cd01998 395492014360 Ligand Binding Site [chemical binding]; other site 395492014361 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 395492014362 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492014363 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 395492014364 putative L-serine binding site [chemical binding]; other site 395492014365 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cd01494 395492014366 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395492014367 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 395492014368 catalytic residue [active] 395492014369 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 395492014370 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 395492014371 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 395492014372 active site 395492014373 substrate binding site [chemical binding]; other site 395492014374 metal binding site [ion binding]; metal-binding site 395492014375 FtsH Extracellular; Region: FtsH_ext; pfam06480 395492014376 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 395492014377 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 395492014378 Walker A motif; other site 395492014379 ATP binding site [chemical binding]; other site 395492014380 Walker B motif; other site 395492014381 arginine finger; other site 395492014382 Peptidase family M41; Region: Peptidase_M41; pfam01434 395492014383 N-terminal domain of predicted ATPase of the PP-loop faimly implicated in cell cycle control [Cell division and chromosome partitioning]. This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases...; Region: PP-ATPase; cd01992 395492014384 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 395492014385 Tetratricopeptide repeat; Region: TPR_6; pfam13174 395492014386 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 395492014387 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 395492014388 ligand binding site [chemical binding]; other site 395492014389 translocation protein TolB; Provisional; Region: tolB; PRK05137 395492014390 TolB amino-terminal domain; Region: TolB_N; cl00639 395492014391 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 395492014392 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 395492014393 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 395492014394 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 395492014395 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 395492014396 Gram-negative bacterial tonB protein; Region: TonB; cl10048 395492014397 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 395492014398 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 395492014399 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 395492014400 active site 395492014401 UDP_sulfoquinovose_synthase (Arabidopsis thaliana SQD1 and related proteins), extended (e) SDRs; Region: SQD1_like_SDR_e; cd05255 395492014402 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395492014403 NAD binding site [chemical binding]; other site 395492014404 substrate binding site [chemical binding]; other site 395492014405 active site 395492014406 Glycogenin belongs the GT 8 family and initiates the biosynthesis of glycogen; Region: GT8_Glycogenin; cd02537 395492014407 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 395492014408 substrate binding site; other site 395492014409 Manganese binding site; other site 395492014410 dimer interface; other site 395492014411 extended (e) SDRs; Region: SDR_e; cd08946 395492014412 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 395492014413 NAD(P) binding site [chemical binding]; other site 395492014414 active site 395492014415 substrate binding site [chemical binding]; other site 395492014416 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 395492014417 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 395492014418 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 395492014419 putative active site [active] 395492014420 metal binding site [ion binding]; metal-binding site 395492014421 homodimer binding site [polypeptide binding]; other site 395492014422 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 395492014423 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 395492014424 Transcriptional regulator; Region: Transcrip_reg; cl00361 395492014425 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 395492014426 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 395492014427 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 395492014428 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 395492014429 Plant ATP synthase F0; Region: YMF19; cl07975 395492014430 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395492014431 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395492014432 dimer interface [polypeptide binding]; other site 395492014433 putative CheW interface [polypeptide binding]; other site 395492014434 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cd00529 395492014435 active site 395492014436 putative DNA-binding cleft [nucleotide binding]; other site 395492014437 dimer interface [polypeptide binding]; other site 395492014438 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 395492014439 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 395492014440 putative active site [active] 395492014441 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 395492014442 RuvA N terminal domain; Region: RuvA_N; pfam01330 395492014443 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 395492014444 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 395492014445 Walker A motif; other site 395492014446 ATP binding site [chemical binding]; other site 395492014447 Walker B motif; other site 395492014448 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 395492014449 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 395492014450 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 395492014451 putative active site [active] 395492014452 putative metal binding site [ion binding]; other site 395492014453 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_29; cd04688 395492014454 nudix motif; other site 395492014455 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 395492014456 DinB superfamily; Region: DinB_2; pfam12867 395492014457 Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]; Region: VirJ; COG3946 395492014458 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 395492014459 Predicted integral membrane protein [Function unknown]; Region: COG0392 395492014460 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 395492014461 Uncharacterized conserved protein [Function unknown]; Region: COG2898 395492014462 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 395492014463 DoxX; Region: DoxX; cl00976 395492014464 Mechanosensitive ion channel; Region: MS_channel; pfam00924 395492014465 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492014466 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 395492014467 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 395492014468 hydrophobic ligand binding site; other site 395492014469 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 395492014470 dimerization interface [polypeptide binding]; other site 395492014471 putative DNA binding site [nucleotide binding]; other site 395492014472 putative Zn2+ binding site [ion binding]; other site 395492014473 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395492014474 extended (e) SDRs; Region: SDR_e; cd08946 395492014475 NAD(P) binding site [chemical binding]; other site 395492014476 active site 395492014477 substrate binding site [chemical binding]; other site 395492014478 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4222 395492014479 Cell division protein ZapA; Region: ZapA; cl01146 395492014480 Domain of unknown function (DUF4164); Region: DUF4164; pfam13747 395492014481 transketolase; Reviewed; Region: PRK05899 395492014482 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 395492014483 TPP-binding site [chemical binding]; other site 395492014484 dimer interface [polypeptide binding]; other site 395492014485 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 395492014486 PYR/PP interface [polypeptide binding]; other site 395492014487 dimer interface [polypeptide binding]; other site 395492014488 TPP binding site [chemical binding]; other site 395492014489 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492014490 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 395492014491 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 395492014492 potassium/proton antiporter; Reviewed; Region: PRK05326 395492014493 Transporter associated domain; Region: CorC_HlyC; cl08393 395492014494 Phosphoglycerate kinase; Region: PGK; pfam00162 395492014495 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 395492014496 substrate binding site [chemical binding]; other site 395492014497 hinge regions; other site 395492014498 ADP binding site [chemical binding]; other site 395492014499 catalytic site [active] 395492014500 Fructose-1,6-bisphosphate aldolase; Region: FBP_aldolase_I_a; cd00948 395492014501 active site 395492014502 intersubunit interface [polypeptide binding]; other site 395492014503 catalytic residue [active] 395492014504 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 395492014505 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395492014506 putative substrate translocation pore; other site 395492014507 Protein of unknown function (DUF1192); Region: DUF1192; cl11573 395492014508 Protein of unknown function (DUF1465); Region: DUF1465; cl11562 395492014509 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 395492014510 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 395492014511 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 395492014512 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1. In fact, the...; Region: ABC_MTABC3_MDL1_MDL2; cd03249 395492014513 Walker A/P-loop; other site 395492014514 ATP binding site [chemical binding]; other site 395492014515 Q-loop/lid; other site 395492014516 ABC transporter signature motif; other site 395492014517 Walker B; other site 395492014518 D-loop; other site 395492014519 H-loop/switch region; other site 395492014520 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 395492014521 NMT1-like family; Region: NMT1_2; cl15260 395492014522 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 395492014523 YCII-related domain; Region: YCII; cl00999 395492014524 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 395492014525 hypothetical protein; Validated; Region: PRK09039 395492014526 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 395492014527 ligand binding site [chemical binding]; other site 395492014528 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 395492014529 active site 395492014530 dimerization interface [polypeptide binding]; other site 395492014531 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 395492014532 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492014533 active site 395492014534 phosphorylation site [posttranslational modification] 395492014535 intermolecular recognition site; other site 395492014536 CheB methylesterase; Region: CheB_methylest; pfam01339 395492014537 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 395492014538 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 395492014539 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 395492014540 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 395492014541 putative CheA interaction surface; other site 395492014542 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 395492014543 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 395492014544 dimerization interface [polypeptide binding]; other site 395492014545 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395492014546 dimer interface [polypeptide binding]; other site 395492014547 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 395492014548 putative CheW interface [polypeptide binding]; other site 395492014549 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 395492014550 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 395492014551 dimerization interface [polypeptide binding]; other site 395492014552 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395492014553 dimer interface [polypeptide binding]; other site 395492014554 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 395492014555 putative CheW interface [polypeptide binding]; other site 395492014556 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 395492014557 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 395492014558 dimerization interface [polypeptide binding]; other site 395492014559 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395492014560 dimer interface [polypeptide binding]; other site 395492014561 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 395492014562 putative CheW interface [polypeptide binding]; other site 395492014563 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 395492014564 putative CheA interaction surface; other site 395492014565 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 395492014566 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 395492014567 putative binding surface; other site 395492014568 active site 395492014569 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 395492014570 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 395492014571 ATP binding site [chemical binding]; other site 395492014572 Mg2+ binding site [ion binding]; other site 395492014573 G-X-G motif; other site 395492014574 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 395492014575 Response regulator receiver domain; Region: Response_reg; pfam00072 395492014576 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492014577 active site 395492014578 phosphorylation site [posttranslational modification] 395492014579 intermolecular recognition site; other site 395492014580 dimerization interface [polypeptide binding]; other site 395492014581 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 395492014582 methyl-accepting protein IV; Provisional; Region: PRK09793 395492014583 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 395492014584 Sel1 repeat; Region: Sel1; cl02723 395492014585 Sel1 repeat; Region: Sel1; cl02723 395492014586 Sel1 repeat; Region: Sel1; cl02723 395492014587 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 395492014588 thiamine phosphate binding site [chemical binding]; other site 395492014589 active site 395492014590 pyrophosphate binding site [ion binding]; other site 395492014591 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 395492014592 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 395492014593 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 395492014594 dimerization interface [polypeptide binding]; other site 395492014595 putative DNA binding site [nucleotide binding]; other site 395492014596 putative Zn2+ binding site [ion binding]; other site 395492014597 Protein of unknown function (DUF465); Region: DUF465; cl01070 395492014598 Protein of unknown function (DUF465); Region: DUF465; cl01070 395492014599 AIR carboxylase; Region: AIRC; cl00310 395492014600 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 395492014601 ATP-grasp domain; Region: ATP-grasp_4; cl03087 395492014602 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 395492014603 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 395492014604 binding surface 395492014605 TPR repeat; Region: TPR_11; pfam13414 395492014606 TPR motif; other site 395492014607 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395492014608 classical (c) SDRs; Region: SDR_c; cd05233 395492014609 short chain dehydrogenase; Provisional; Region: PRK07041 395492014610 NAD(P) binding site [chemical binding]; other site 395492014611 active site 395492014612 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 395492014613 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 395492014614 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 395492014615 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 395492014616 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 395492014617 tetramer interface [polypeptide binding]; other site 395492014618 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492014619 catalytic residue [active] 395492014620 Helix-turn-helix domains; Region: HTH; cl00088 395492014621 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492014622 dimerization interface [polypeptide binding]; other site 395492014623 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 395492014624 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 395492014625 Cupin domain; Region: Cupin_2; cl09118 395492014626 LysE type translocator; Region: LysE; cl00565 395492014627 pyruvate kinase; Provisional; Region: PRK06247 395492014628 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 395492014629 domain interfaces; other site 395492014630 active site 395492014631 Protein of unknown function (DUF1036); Region: DUF1036; cl02296 395492014632 N-formylglutamate amidohydrolase; Region: FGase; cl01522 395492014633 Protein of unknown function (DUF1244); Region: DUF1244; cl01385 395492014634 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; cl11480 395492014635 Peptidase M15; Region: Peptidase_M15_3; cl01194 395492014636 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 395492014637 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492014638 active site 395492014639 phosphorylation site [posttranslational modification] 395492014640 intermolecular recognition site; other site 395492014641 dimerization interface [polypeptide binding]; other site 395492014642 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 395492014643 Walker A motif; other site 395492014644 ATP binding site [chemical binding]; other site 395492014645 Walker B motif; other site 395492014646 arginine finger; other site 395492014647 Helix-turn-helix domains; Region: HTH; cl00088 395492014648 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 395492014649 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 395492014650 active site 395492014651 Zn binding site [ion binding]; other site 395492014652 aminodeoxychorismate synthase; Provisional; Region: PRK07508 395492014653 chorismate binding enzyme; Region: Chorismate_bind; cl10555 395492014654 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 395492014655 substrate-cofactor binding pocket; other site 395492014656 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492014657 catalytic residue [active] 395492014658 YCII-related domain; Region: YCII; cl00999 395492014659 Homospermidine synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG5310 395492014660 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 395492014661 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 395492014662 CD73 ecto-5'-nucleotidase and related proteins, N-terminal metallophosphatase domain; Region: MPP_CD73_N; cd07409 395492014663 active site 395492014664 metal binding site [ion binding]; metal-binding site 395492014665 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 395492014666 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 395492014667 putative peptidoglycan binding site; other site 395492014668 ferrochelatase; Reviewed; Region: hemH; PRK00035 395492014669 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 395492014670 C-terminal domain interface [polypeptide binding]; other site 395492014671 active site 395492014672 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 395492014673 active site 395492014674 N-terminal domain interface [polypeptide binding]; other site 395492014675 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 395492014676 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 395492014677 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 395492014678 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 395492014679 putative active site [active] 395492014680 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 395492014681 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 395492014682 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395492014683 Helix-turn-helix domains; Region: HTH; cl00088 395492014684 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 395492014685 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492014686 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 395492014687 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 395492014688 FAD dependent oxidoreductase; Region: DAO; pfam01266 395492014689 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 395492014690 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 395492014691 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 395492014692 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 395492014693 [2Fe-2S] cluster binding site [ion binding]; other site 395492014694 C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_GbcA-like; cd08884 395492014695 putative alpha subunit interface [polypeptide binding]; other site 395492014696 putative active site [active] 395492014697 putative substrate binding site [chemical binding]; other site 395492014698 Fe binding site [ion binding]; other site 395492014699 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 395492014700 active site 395492014701 tetramer interface; other site 395492014702 Transglycosylase SLT domain; Region: SLT_2; pfam13406 395492014703 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 395492014704 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 395492014705 SGNH_peri2; putative periplasmic member of the SGNH-family of hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known...; Region: SGNH_hydrolase_peri2; cd01829 395492014706 active site 395492014707 catalytic triad [active] 395492014708 oxyanion hole [active] 395492014709 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 395492014710 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492014711 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 395492014712 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 395492014713 active site 395492014714 dimer interface [polypeptide binding]; other site 395492014715 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 395492014716 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 395492014717 active site 395492014718 FMN binding site [chemical binding]; other site 395492014719 substrate binding site [chemical binding]; other site 395492014720 3Fe-4S cluster binding site [ion binding]; other site 395492014721 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 395492014722 domain interface; other site 395492014723 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 395492014724 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 395492014725 tetramer interface [polypeptide binding]; other site 395492014726 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492014727 catalytic residue [active] 395492014728 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395492014729 Helix-turn-helix domains; Region: HTH; cl00088 395492014730 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492014731 dimerization interface [polypeptide binding]; other site 395492014732 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 395492014733 Membrane transport protein; Region: Mem_trans; cl09117 395492014734 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 395492014735 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 395492014736 putative dimer interface [polypeptide binding]; other site 395492014737 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 395492014738 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395492014739 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395492014740 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395492014741 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 395492014742 active site 395492014743 N-formylglutamate amidohydrolase; Region: FGase; cl01522 395492014744 Response regulator receiver domain; Region: Response_reg; pfam00072 395492014745 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492014746 active site 395492014747 phosphorylation site [posttranslational modification] 395492014748 intermolecular recognition site; other site 395492014749 dimerization interface [polypeptide binding]; other site 395492014750 Porin subfamily; Region: Porin_2; pfam02530 395492014751 MgtC family; Region: MgtC; pfam02308 395492014752 Integral membrane protein TerC family; Region: TerC; cl10468 395492014753 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 395492014754 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 395492014755 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 395492014756 NMT1-like family; Region: NMT1_2; cl15260 395492014757 Right handed beta helix region; Region: Beta_helix; pfam13229 395492014758 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492014759 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492014760 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 395492014761 Ornithine carbamoyltransferase [Amino acid transport and metabolism]; Region: ArgF; COG0078 395492014762 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 395492014763 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492014764 cyclase homology domain; Region: CHD; cd07302 395492014765 nucleotidyl binding site; other site 395492014766 metal binding site [ion binding]; metal-binding site 395492014767 dimer interface [polypeptide binding]; other site 395492014768 TolB amino-terminal domain; Region: TolB_N; cl00639 395492014769 TPR repeat; Region: TPR_11; pfam13414 395492014770 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 395492014771 TPR motif; other site 395492014772 binding surface 395492014773 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 395492014774 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492014775 active site 395492014776 phosphorylation site [posttranslational modification] 395492014777 intermolecular recognition site; other site 395492014778 dimerization interface [polypeptide binding]; other site 395492014779 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 395492014780 DNA binding site [nucleotide binding] 395492014781 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 395492014782 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395492014783 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 395492014784 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 395492014785 ATP binding site [chemical binding]; other site 395492014786 Mg2+ binding site [ion binding]; other site 395492014787 G-X-G motif; other site 395492014788 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 395492014789 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 395492014790 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 395492014791 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 395492014792 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 395492014793 Uncharacterized conserved protein [Function unknown]; Region: COG2308 395492014794 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; pfam04174 395492014795 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; cl00980 395492014796 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 395492014797 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 395492014798 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 395492014799 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 395492014800 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 395492014801 homodimer interface [polypeptide binding]; other site 395492014802 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 395492014803 active site pocket [active] 395492014804 glycogen branching enzyme; Provisional; Region: PRK05402 395492014805 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 395492014806 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 395492014807 active site 395492014808 catalytic site [active] 395492014809 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 395492014810 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 395492014811 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 395492014812 ligand binding site; other site 395492014813 oligomer interface; other site 395492014814 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 395492014815 dimer interface [polypeptide binding]; other site 395492014816 N-terminal domain interface [polypeptide binding]; other site 395492014817 sulfate 1 binding site; other site 395492014818 glycogen synthase; Provisional; Region: glgA; PRK00654 395492014819 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 395492014820 ADP-binding pocket [chemical binding]; other site 395492014821 homodimer interface [polypeptide binding]; other site 395492014822 Phosphoglucomutase 1 (PGM1) catalyzes the bidirectional interconversion of glucose-1-phosphate (G-1-P) and glucose-6-phosphate (G-6-P) via a glucose 1,6-diphosphate intermediate, an important metabolic step in prokaryotes and eukaryotes. In one direction; Region: PGM1; cd03085 395492014823 phosphoglucomutase; Region: PLN02307 395492014824 substrate binding site [chemical binding]; other site 395492014825 dimer interface [polypeptide binding]; other site 395492014826 active site 395492014827 metal binding site [ion binding]; metal-binding site 395492014828 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 395492014829 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 395492014830 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 395492014831 active site 395492014832 catalytic site [active] 395492014833 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 395492014834 putative active site [active] 395492014835 putative catalytic site [active] 395492014836 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 395492014837 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395492014838 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 395492014839 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 395492014840 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 395492014841 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 395492014842 Sarcosine oxidase, delta subunit family; Region: SoxD; cl01767 395492014843 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 395492014844 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4254 395492014845 FecR protein; Region: FecR; pfam04773 395492014846 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 395492014847 CHASE2 domain; Region: CHASE2; cl01732 395492014848 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 395492014849 cyclase homology domain; Region: CHD; cd07302 395492014850 nucleotidyl binding site; other site 395492014851 metal binding site [ion binding]; metal-binding site 395492014852 dimer interface [polypeptide binding]; other site 395492014853 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 395492014854 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 395492014855 cyclase homology domain; Region: CHD; cd07302 395492014856 nucleotidyl binding site; other site 395492014857 metal binding site [ion binding]; metal-binding site 395492014858 dimer interface [polypeptide binding]; other site 395492014859 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 395492014860 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 395492014861 TPR motif; other site 395492014862 TPR repeat; Region: TPR_11; pfam13414 395492014863 binding surface 395492014864 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 395492014865 binding surface 395492014866 TPR motif; other site 395492014867 TPR repeat; Region: TPR_11; pfam13414 395492014868 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 395492014869 binding surface 395492014870 TPR motif; other site 395492014871 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 395492014872 Histidine kinase; Region: HisKA_2; cl06527 395492014873 Protein of unknown function (DUF992); Region: DUF992; pfam06186 395492014874 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 395492014875 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 395492014876 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 395492014877 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 395492014878 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 395492014879 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 395492014880 Bacterial aa3 type cytochrome c oxidase subunit IV; Region: COX4_pro_2; pfam07835 395492014881 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 395492014882 PAS fold; Region: PAS_7; pfam12860 395492014883 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395492014884 metal binding site [ion binding]; metal-binding site 395492014885 active site 395492014886 I-site; other site 395492014887 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 395492014888 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 395492014889 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 395492014890 DctM-like transporters; Region: DctM; pfam06808 395492014891 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 395492014892 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 395492014893 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 395492014894 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 395492014895 catalytic triad [active] 395492014896 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 395492014897 metal ion-dependent adhesion site (MIDAS); other site 395492014898 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 395492014899 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 395492014900 putative metal binding site [ion binding]; other site 395492014901 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 395492014902 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 395492014903 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492014904 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395492014905 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395492014906 DNA binding site [nucleotide binding] 395492014907 domain linker motif; other site 395492014908 Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria; Region: PBP1_MalI_like; cd06289 395492014909 putative dimerization interface [polypeptide binding]; other site 395492014910 putative ligand binding site [chemical binding]; other site 395492014911 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 395492014912 Helix-turn-helix domains; Region: HTH; cl00088 395492014913 Creatinine amidohydrolase; Region: Creatininase; cl00618 395492014914 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 395492014915 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 395492014916 P-loop, Walker A motif; other site 395492014917 Base recognition motif; other site 395492014918 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 395492014919 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 395492014920 structural tetrad; other site 395492014921 serine acetyltransferase; Provisional; Region: cysE; PRK11132 395492014922 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 395492014923 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 395492014924 trimer interface [polypeptide binding]; other site 395492014925 active site 395492014926 substrate binding site [chemical binding]; other site 395492014927 CoA binding site [chemical binding]; other site 395492014928 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395492014929 metal binding site [ion binding]; metal-binding site 395492014930 active site 395492014931 I-site; other site 395492014932 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 395492014933 Predicted acetyltransferase [General function prediction only]; Region: COG3153 395492014934 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395492014935 Coenzyme A binding pocket [chemical binding]; other site 395492014936 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 395492014937 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 395492014938 active site 395492014939 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 395492014940 dimer interface [polypeptide binding]; other site 395492014941 catalytic residues [active] 395492014942 substrate binding site [chemical binding]; other site 395492014943 Helix-turn-helix domains; Region: HTH; cl00088 395492014944 LysR family transcriptional regulator; Provisional; Region: PRK14997 395492014945 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 395492014946 putative effector binding pocket; other site 395492014947 dimerization interface [polypeptide binding]; other site 395492014948 Protein of unknown function (DUF1007); Region: DUF1007; cl01487 395492014949 High-affinity nickel-transport protein; Region: NicO; cl00964 395492014950 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 395492014951 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395492014952 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 395492014953 putative metal binding site [ion binding]; other site 395492014954 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 395492014955 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 395492014956 active site 395492014957 intersubunit interface [polypeptide binding]; other site 395492014958 catalytic residue [active] 395492014959 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 395492014960 putative active site [active] 395492014961 putative metal binding residues [ion binding]; other site 395492014962 signature motif; other site 395492014963 putative dimer interface [polypeptide binding]; other site 395492014964 putative phosphate binding site [ion binding]; other site 395492014965 CHAD domain; Region: CHAD; cl10506 395492014966 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 395492014967 active site 395492014968 metal binding site [ion binding]; metal-binding site 395492014969 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395492014970 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 395492014971 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 395492014972 active site residue [active] 395492014973 CHASE4 domain; Region: CHASE4; cl01308 395492014974 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395492014975 metal binding site [ion binding]; metal-binding site 395492014976 active site 395492014977 I-site; other site 395492014978 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 395492014979 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 395492014980 DoxX; Region: DoxX; cl00976 395492014981 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395492014982 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492014983 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 395492014984 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 395492014985 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 395492014986 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 395492014987 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_3; cd06311 395492014988 putative ligand binding site [chemical binding]; other site 395492014989 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 395492014990 TM-ABC transporter signature motif; other site 395492014991 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 395492014992 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 395492014993 Walker A/P-loop; other site 395492014994 ATP binding site [chemical binding]; other site 395492014995 Q-loop/lid; other site 395492014996 ABC transporter signature motif; other site 395492014997 Walker B; other site 395492014998 D-loop; other site 395492014999 H-loop/switch region; other site 395492015000 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 395492015001 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395492015002 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395492015003 DNA binding site [nucleotide binding] 395492015004 domain linker motif; other site 395492015005 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 395492015006 dimerization interface [polypeptide binding]; other site 395492015007 ligand binding site [chemical binding]; other site 395492015008 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 395492015009 D-xylulose kinases, Escherichia coli xylulokinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 395492015010 N- and C-terminal domain interface [polypeptide binding]; other site 395492015011 D-xylulose kinase; Region: XylB; TIGR01312 395492015012 active site 395492015013 catalytic site [active] 395492015014 metal binding site [ion binding]; metal-binding site 395492015015 xylulose binding site [chemical binding]; other site 395492015016 putative ATP binding site [chemical binding]; other site 395492015017 homodimer interface [polypeptide binding]; other site 395492015018 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395492015019 DNA binding site [nucleotide binding] 395492015020 domain linker motif; other site 395492015021 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 395492015022 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 395492015023 putative ligand binding site [chemical binding]; other site 395492015024 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 395492015025 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395492015026 putative substrate translocation pore; other site 395492015027 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395492015028 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 395492015029 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395492015030 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395492015031 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395492015032 Helix-turn-helix domains; Region: HTH; cl00088 395492015033 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 395492015034 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395492015035 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395492015036 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395492015037 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 395492015038 Integral membrane protein TerC family; Region: TerC; cl10468 395492015039 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 395492015040 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 395492015041 HIGH motif; other site 395492015042 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 395492015043 active site 395492015044 KMSKS motif; other site 395492015045 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 395492015046 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 395492015047 dimer interface [polypeptide binding]; other site 395492015048 putative anticodon binding site; other site 395492015049 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 395492015050 motif 1; other site 395492015051 active site 395492015052 motif 2; other site 395492015053 motif 3; other site 395492015054 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395492015055 Helix-turn-helix domains; Region: HTH; cl00088 395492015056 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 395492015057 putative substrate binding pocket [chemical binding]; other site 395492015058 dimerization interface [polypeptide binding]; other site 395492015059 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 395492015060 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492015061 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 395492015062 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492015063 Walker A/P-loop; other site 395492015064 ATP binding site [chemical binding]; other site 395492015065 Q-loop/lid; other site 395492015066 ABC transporter signature motif; other site 395492015067 Walker B; other site 395492015068 D-loop; other site 395492015069 H-loop/switch region; other site 395492015070 TOBE domain; Region: TOBE_2; cl01440 395492015071 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492015072 dimer interface [polypeptide binding]; other site 395492015073 conserved gate region; other site 395492015074 putative PBP binding loops; other site 395492015075 ABC-ATPase subunit interface; other site 395492015076 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492015077 dimer interface [polypeptide binding]; other site 395492015078 conserved gate region; other site 395492015079 putative PBP binding loops; other site 395492015080 ABC-ATPase subunit interface; other site 395492015081 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395492015082 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 395492015083 tetrameric interface [polypeptide binding]; other site 395492015084 NAD binding site [chemical binding]; other site 395492015085 catalytic residues [active] 395492015086 substrate binding site [chemical binding]; other site 395492015087 Integral membrane protein TerC family; Region: TerC; cl10468 395492015088 DoxX; Region: DoxX; cl00976 395492015089 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 395492015090 TPR motif; other site 395492015091 binding surface 395492015092 Tetratricopeptide repeat; Region: TPR_16; pfam13432 395492015093 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 395492015094 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 395492015095 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395492015096 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 395492015097 DNA binding residues [nucleotide binding] 395492015098 Putative zinc-finger; Region: zf-HC2; cl15806 395492015099 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 395492015100 Protein of unknown function (DUF1345); Region: DUF1345; cl01753 395492015101 transaldolase-like protein; Provisional; Region: PTZ00411 395492015102 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 395492015103 active site 395492015104 dimer interface [polypeptide binding]; other site 395492015105 catalytic residue [active] 395492015106 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 395492015107 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 395492015108 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 395492015109 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 395492015110 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 395492015111 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 395492015112 DNA binding site [nucleotide binding] 395492015113 active site 395492015114 Integral membrane protein (DUF2244); Region: DUF2244; cl02302 395492015115 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 395492015116 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 395492015117 minor groove reading motif; other site 395492015118 helix-hairpin-helix signature motif; other site 395492015119 substrate binding pocket [chemical binding]; other site 395492015120 active site 395492015121 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 395492015122 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 395492015123 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 395492015124 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 395492015125 Ribulose kinase [Energy production and conversion]; Region: AraB; COG1069 395492015126 Yersinia Pseudotuberculosis carbohydrate kinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_YpCarbK_like; cd07782 395492015127 N- and C-terminal domain interface [polypeptide binding]; other site 395492015128 putative active site [active] 395492015129 putative MgATP binding site [chemical binding]; other site 395492015130 catalytic site [active] 395492015131 metal binding site [ion binding]; metal-binding site 395492015132 carbohydrate binding site [chemical binding]; other site 395492015133 putative homodimer interface [polypeptide binding]; other site 395492015134 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 395492015135 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 395492015136 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 395492015137 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 395492015138 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 395492015139 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395492015140 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395492015141 Walker A/P-loop; other site 395492015142 ATP binding site [chemical binding]; other site 395492015143 Q-loop/lid; other site 395492015144 ABC transporter signature motif; other site 395492015145 Walker B; other site 395492015146 D-loop; other site 395492015147 H-loop/switch region; other site 395492015148 TOBE domain; Region: TOBE_2; cl01440 395492015149 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395492015150 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492015151 dimer interface [polypeptide binding]; other site 395492015152 conserved gate region; other site 395492015153 putative PBP binding loops; other site 395492015154 ABC-ATPase subunit interface; other site 395492015155 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492015156 dimer interface [polypeptide binding]; other site 395492015157 conserved gate region; other site 395492015158 putative PBP binding loops; other site 395492015159 ABC-ATPase subunit interface; other site 395492015160 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395492015161 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492015162 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 395492015163 Helix-turn-helix domains; Region: HTH; cl00088 395492015164 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 395492015165 Exopolysaccharide synthesis, ExoD; Region: ExoD; cl01617 395492015166 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 395492015167 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 395492015168 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 395492015169 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 395492015170 active site 395492015171 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 395492015172 substrate binding pocket [chemical binding]; other site 395492015173 membrane-bound complex binding site; other site 395492015174 hinge residues; other site 395492015175 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 395492015176 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 395492015177 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 395492015178 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 395492015179 chlorocatechol 1,2-dioxygenase; Region: chlorocat_1_2; TIGR02465 395492015180 active site 395492015181 Transcriptional regulators [Transcription]; Region: GntR; COG1802 395492015182 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395492015183 DNA-binding site [nucleotide binding]; DNA binding site 395492015184 FCD domain; Region: FCD; cl11656 395492015185 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 395492015186 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395492015187 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 395492015188 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492015189 dimer interface [polypeptide binding]; other site 395492015190 conserved gate region; other site 395492015191 putative PBP binding loops; other site 395492015192 ABC-ATPase subunit interface; other site 395492015193 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492015194 dimer interface [polypeptide binding]; other site 395492015195 conserved gate region; other site 395492015196 putative PBP binding loops; other site 395492015197 ABC-ATPase subunit interface; other site 395492015198 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395492015199 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 395492015200 substrate binding pocket [chemical binding]; other site 395492015201 membrane-bound complex binding site; other site 395492015202 hinge residues; other site 395492015203 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 395492015204 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 395492015205 Walker A/P-loop; other site 395492015206 ATP binding site [chemical binding]; other site 395492015207 Q-loop/lid; other site 395492015208 ABC transporter signature motif; other site 395492015209 Walker B; other site 395492015210 D-loop; other site 395492015211 H-loop/switch region; other site 395492015212 shikimate 5-dehydrogenase; Reviewed; Region: PRK12549 395492015213 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 395492015214 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 395492015215 shikimate binding site; other site 395492015216 NAD(P) binding site [chemical binding]; other site 395492015217 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 395492015218 putative substrate binding pocket [chemical binding]; other site 395492015219 trimer interface [polypeptide binding]; other site 395492015220 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 395492015221 trimer interface [polypeptide binding]; other site 395492015222 active site 395492015223 dimer interface [polypeptide binding]; other site 395492015224 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395492015225 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492015226 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 395492015227 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 395492015228 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395492015229 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395492015230 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395492015231 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395492015232 Helix-turn-helix domains; Region: HTH; cl00088 395492015233 OsmC-like protein; Region: OsmC; cl00767 395492015234 short chain dehydrogenase; Provisional; Region: PRK07063 395492015235 classical (c) SDRs; Region: SDR_c; cd05233 395492015236 NAD(P) binding site [chemical binding]; other site 395492015237 active site 395492015238 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 395492015239 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 395492015240 active site 395492015241 catalytic residues [active] 395492015242 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 395492015243 TM-ABC transporter signature motif; other site 395492015244 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 395492015245 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 395492015246 Walker A/P-loop; other site 395492015247 ATP binding site [chemical binding]; other site 395492015248 Q-loop/lid; other site 395492015249 ABC transporter signature motif; other site 395492015250 Walker B; other site 395492015251 D-loop; other site 395492015252 H-loop/switch region; other site 395492015253 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 395492015254 Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily; Region: PBP1_arabinose_binding; cd01540 395492015255 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 395492015256 ligand binding site [chemical binding]; other site 395492015257 Transcriptional regulators [Transcription]; Region: FadR; COG2186 395492015258 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395492015259 DNA-binding site [nucleotide binding]; DNA binding site 395492015260 FCD domain; Region: FCD; cl11656 395492015261 galactonate dehydratase; Provisional; Region: PRK14017 395492015262 D-galactonate dehydratase catalyses the dehydration of galactonate to 2-keto-3-deoxygalactnate (KDGal), as part of the D-galactonate nonphosphorolytic catabolic Entner-Doudoroff pathway. D-galactonate dehydratase belongs to the enolase superfamily of...; Region: D-galactonate_dehydratase; cd03325 395492015263 putative active site pocket [active] 395492015264 putative metal binding site [ion binding]; other site 395492015265 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 395492015266 classical (c) SDRs; Region: SDR_c; cd05233 395492015267 NAD(P) binding site [chemical binding]; other site 395492015268 active site 395492015269 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 395492015270 cyclase homology domain; Region: CHD; cd07302 395492015271 nucleotidyl binding site; other site 395492015272 metal binding site [ion binding]; metal-binding site 395492015273 dimer interface [polypeptide binding]; other site 395492015274 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395492015275 DNA binding site [nucleotide binding] 395492015276 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 395492015277 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 395492015278 short chain dehydrogenase; Provisional; Region: PRK06198 395492015279 classical (c) SDRs; Region: SDR_c; cd05233 395492015280 NAD(P) binding site [chemical binding]; other site 395492015281 active site 395492015282 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 395492015283 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 395492015284 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 395492015285 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 395492015286 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; cl15381 395492015287 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395492015288 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395492015289 Walker A/P-loop; other site 395492015290 ATP binding site [chemical binding]; other site 395492015291 Q-loop/lid; other site 395492015292 ABC transporter signature motif; other site 395492015293 Walker B; other site 395492015294 D-loop; other site 395492015295 H-loop/switch region; other site 395492015296 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395492015297 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492015298 dimer interface [polypeptide binding]; other site 395492015299 conserved gate region; other site 395492015300 putative PBP binding loops; other site 395492015301 ABC-ATPase subunit interface; other site 395492015302 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 395492015303 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492015304 dimer interface [polypeptide binding]; other site 395492015305 putative PBP binding loops; other site 395492015306 ABC-ATPase subunit interface; other site 395492015307 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395492015308 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395492015309 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395492015310 DNA binding site [nucleotide binding] 395492015311 domain linker motif; other site 395492015312 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 395492015313 ligand binding site [chemical binding]; other site 395492015314 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 395492015315 Ligand Binding Site [chemical binding]; other site 395492015316 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 395492015317 active site 395492015318 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: Bsubt_queE; TIGR03365 395492015319 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 395492015320 cyclase homology domain; Region: CHD; cd07302 395492015321 nucleotidyl binding site; other site 395492015322 metal binding site [ion binding]; metal-binding site 395492015323 dimer interface [polypeptide binding]; other site 395492015324 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 395492015325 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 395492015326 dimer interface [polypeptide binding]; other site 395492015327 putative radical transfer pathway; other site 395492015328 diiron center [ion binding]; other site 395492015329 tyrosyl radical; other site 395492015330 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 395492015331 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 395492015332 Class I ribonucleotide reductase; Region: RNR_I; cd01679 395492015333 active site 395492015334 dimer interface [polypeptide binding]; other site 395492015335 catalytic residues [active] 395492015336 effector binding site; other site 395492015337 R2 peptide binding site; other site 395492015338 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 395492015339 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 395492015340 catalytic residues [active] 395492015341 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 395492015342 metal-binding site [ion binding] 395492015343 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 395492015344 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 395492015345 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 395492015346 DNA binding residues [nucleotide binding] 395492015347 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 395492015348 dimer interface [polypeptide binding]; other site 395492015349 putative metal binding site [ion binding]; other site 395492015350 Predicted flavoproteins [General function prediction only]; Region: COG2081 395492015351 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492015352 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 395492015353 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 395492015354 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 395492015355 Helix-turn-helix domains; Region: HTH; cl00088 395492015356 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 395492015357 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395492015358 NAD(P) binding site [chemical binding]; other site 395492015359 catalytic residues [active] 395492015360 Protein of unknown function (DUF779); Region: DUF779; cl01432 395492015361 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 395492015362 intracellular protease, PfpI family; Region: PfpI; TIGR01382 395492015363 conserved cys residue [active] 395492015364 Ribbon-helix-helix domain; Region: RHH_4; cl01775 395492015365 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 395492015366 classical (c) SDRs; Region: SDR_c; cd05233 395492015367 NAD(P) binding site [chemical binding]; other site 395492015368 active site 395492015369 calcium/sodium:proton antiporter; Provisional; Region: PRK10599 395492015370 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 395492015371 Protein of unknown function (DUF4239); Region: DUF4239; pfam14023 395492015372 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395492015373 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395492015374 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 395492015375 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 395492015376 Growth hormone receptor binding; Region: GHBP; pfam12772 395492015377 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 395492015378 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 395492015379 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 395492015380 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 395492015381 Clp amino terminal domain; Region: Clp_N; pfam02861 395492015382 Clp amino terminal domain; Region: Clp_N; pfam02861 395492015383 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 395492015384 Walker A motif; other site 395492015385 ATP binding site [chemical binding]; other site 395492015386 Walker B motif; other site 395492015387 arginine finger; other site 395492015388 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 395492015389 Walker A motif; other site 395492015390 ATP binding site [chemical binding]; other site 395492015391 Walker B motif; other site 395492015392 arginine finger; other site 395492015393 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 395492015394 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 395492015395 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 395492015396 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 395492015397 S-adenosylmethionine binding site [chemical binding]; other site 395492015398 peptide chain release factor 1; Validated; Region: prfA; PRK00591 395492015399 RF-1 domain; Region: RF-1; cl02875 395492015400 RF-1 domain; Region: RF-1; cl02875 395492015401 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 395492015402 GAF domain; Region: GAF; cl15785 395492015403 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 395492015404 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 395492015405 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 395492015406 aspartate kinase; Reviewed; Region: PRK06635 395492015407 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 395492015408 putative nucleotide binding site [chemical binding]; other site 395492015409 putative catalytic residues [active] 395492015410 putative Mg ion binding site [ion binding]; other site 395492015411 putative aspartate binding site [chemical binding]; other site 395492015412 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 395492015413 putative allosteric regulatory site; other site 395492015414 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 395492015415 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 395492015416 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 395492015417 S-adenosylmethionine binding site [chemical binding]; other site 395492015418 Domain of unknown function (DUF3291); Region: DUF3291; pfam11695 395492015419 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 395492015420 Predicted amidohydrolase [General function prediction only]; Region: COG0388 395492015421 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 395492015422 putative active site [active] 395492015423 catalytic triad [active] 395492015424 dimer interface [polypeptide binding]; other site 395492015425 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 395492015426 GSH binding site [chemical binding]; other site 395492015427 catalytic residues [active] 395492015428 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 395492015429 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 395492015430 active site 395492015431 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 395492015432 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 395492015433 Flp/Fap pilin component; Region: Flp_Fap; cl01585 395492015434 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 395492015435 active site 395492015436 8-oxo-dGMP binding site [chemical binding]; other site 395492015437 nudix motif; other site 395492015438 metal binding site [ion binding]; metal-binding site 395492015439 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395492015440 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 395492015441 heterotetramer interface [polypeptide binding]; other site 395492015442 active site pocket [active] 395492015443 cleavage site 395492015444 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 395492015445 PPIC-type PPIASE domain; Region: Rotamase; cl08278 395492015446 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 395492015447 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492015448 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 395492015449 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 395492015450 nucleotide binding region [chemical binding]; other site 395492015451 ATP-binding site [chemical binding]; other site 395492015452 hypothetical protein; Provisional; Region: PRK05590 395492015453 SEC-C motif; Region: SEC-C; pfam02810 395492015454 MatE; Region: MatE; cl10513 395492015455 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395492015456 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 395492015457 AMP-binding enzyme; Region: AMP-binding; cl15778 395492015458 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 395492015459 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 395492015460 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 395492015461 active site 395492015462 catalytic tetrad [active] 395492015463 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395492015464 Helix-turn-helix domains; Region: HTH; cl00088 395492015465 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395492015466 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395492015467 putative substrate translocation pore; other site 395492015468 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 395492015469 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 395492015470 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 395492015471 ligand binding site [chemical binding]; other site 395492015472 flexible hinge region; other site 395492015473 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 395492015474 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 395492015475 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 395492015476 active site 395492015477 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 395492015478 endonuclease III; Region: ENDO3c; smart00478 395492015479 minor groove reading motif; other site 395492015480 helix-hairpin-helix signature motif; other site 395492015481 substrate binding pocket [chemical binding]; other site 395492015482 active site 395492015483 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 395492015484 active site 395492015485 HIGH motif; other site 395492015486 nucleotide binding site [chemical binding]; other site 395492015487 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 395492015488 active site 395492015489 KMSKS motif; other site 395492015490 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 395492015491 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 395492015492 short chain dehydrogenase; Validated; Region: PRK06182 395492015493 NADP binding site [chemical binding]; other site 395492015494 active site 395492015495 steroid binding site; other site 395492015496 Hypoxia induced protein conserved region; Region: HIG_1_N; pfam04588 395492015497 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 395492015498 Rhomboid family; Region: Rhomboid; cl11446 395492015499 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 395492015500 Ligand binding site [chemical binding]; other site 395492015501 Electron transfer flavoprotein domain; Region: ETF; pfam01012 395492015502 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 395492015503 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 395492015504 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 395492015505 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07530 395492015506 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492015507 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 395492015508 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 395492015509 catalytic residues [active] 395492015510 argininosuccinate lyase; Provisional; Region: PRK00855 395492015511 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 395492015512 active sites [active] 395492015513 tetramer interface [polypeptide binding]; other site 395492015514 diaminopimelate decarboxylase; Region: lysA; TIGR01048 395492015515 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 395492015516 active site 395492015517 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 395492015518 substrate binding site [chemical binding]; other site 395492015519 catalytic residues [active] 395492015520 dimer interface [polypeptide binding]; other site 395492015521 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 395492015522 Response regulator receiver domain; Region: Response_reg; pfam00072 395492015523 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492015524 active site 395492015525 phosphorylation site [posttranslational modification] 395492015526 intermolecular recognition site; other site 395492015527 dimerization interface [polypeptide binding]; other site 395492015528 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 395492015529 active site 395492015530 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 395492015531 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 395492015532 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 395492015533 Walker A/P-loop; other site 395492015534 ATP binding site [chemical binding]; other site 395492015535 Q-loop/lid; other site 395492015536 ABC transporter signature motif; other site 395492015537 Walker B; other site 395492015538 D-loop; other site 395492015539 H-loop/switch region; other site 395492015540 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 395492015541 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 395492015542 putative active site [active] 395492015543 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 395492015544 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 395492015545 putative acyl-acceptor binding pocket; other site 395492015546 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 395492015547 putative active site pocket [active] 395492015548 dimerization interface [polypeptide binding]; other site 395492015549 putative catalytic residue [active] 395492015550 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4093 395492015551 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 395492015552 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395492015553 Coenzyme A binding pocket [chemical binding]; other site 395492015554 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 395492015555 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492015556 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 395492015557 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 395492015558 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492015559 homodimer interface [polypeptide binding]; other site 395492015560 catalytic residue [active] 395492015561 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 395492015562 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 395492015563 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 395492015564 Cupin superfamily (DUF985); Region: Cupin_5; cl01418 395492015565 aromatic amino acid exporter; Provisional; Region: PRK11689 395492015566 EamA-like transporter family; Region: EamA; cl01037 395492015567 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 395492015568 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 395492015569 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 395492015570 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492015571 Adenylate kinase and related kinases [Nucleotide transport and metabolism]; Region: Adk; COG0563 395492015572 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4246 395492015573 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 395492015574 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 395492015575 cobaltochelatase, CobT subunit; Region: CobT; TIGR01651 395492015576 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 395492015577 metal ion-dependent adhesion site (MIDAS); other site 395492015578 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 395492015579 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 395492015580 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492015581 DnaJ-class molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: CbpA; COG2214 395492015582 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 395492015583 HSP70 interaction site [polypeptide binding]; other site 395492015584 BolA-like protein; Region: BolA; cl00386 395492015585 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 395492015586 Domain of unknown function DUF21; Region: DUF21; pfam01595 395492015587 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 395492015588 Transporter associated domain; Region: CorC_HlyC; cl08393 395492015589 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 395492015590 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 395492015591 active site 395492015592 dimer interface [polypeptide binding]; other site 395492015593 metal binding site [ion binding]; metal-binding site 395492015594 shikimate kinase; Provisional; Region: PRK13946 395492015595 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 395492015596 ADP binding site [chemical binding]; other site 395492015597 magnesium binding site [ion binding]; other site 395492015598 putative shikimate binding site; other site 395492015599 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 395492015600 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 395492015601 active site 395492015602 DNA binding site [nucleotide binding] 395492015603 Int/Topo IB signature motif; other site 395492015604 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 395492015605 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 395492015606 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 395492015607 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 395492015608 CPxP motif; other site 395492015609 Protein of unknown function (DUF1353); Region: DUF1353; pfam07087 395492015610 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 395492015611 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492015612 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 395492015613 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 395492015614 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 395492015615 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 395492015616 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 395492015617 metal binding site [ion binding]; metal-binding site 395492015618 putative dimer interface [polypeptide binding]; other site 395492015619 Protein of unknown function (DUF497); Region: DUF497; cl01108 395492015620 Domain of unknown function (DUF4415); Region: DUF4415; cl01401 395492015621 Protein of unknown function (DUF2937); Region: DUF2937; pfam11157 395492015622 BON domain; Region: BON; cl02771 395492015623 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 395492015624 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 395492015625 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 395492015626 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 395492015627 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395492015628 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395492015629 Walker A/P-loop; other site 395492015630 ATP binding site [chemical binding]; other site 395492015631 Q-loop/lid; other site 395492015632 ABC transporter signature motif; other site 395492015633 Walker B; other site 395492015634 D-loop; other site 395492015635 H-loop/switch region; other site 395492015636 TOBE domain; Region: TOBE_2; cl01440 395492015637 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 395492015638 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 395492015639 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395492015640 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 395492015641 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492015642 dimer interface [polypeptide binding]; other site 395492015643 conserved gate region; other site 395492015644 putative PBP binding loops; other site 395492015645 ABC-ATPase subunit interface; other site 395492015646 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395492015647 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492015648 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395492015649 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395492015650 DNA binding site [nucleotide binding] 395492015651 domain linker motif; other site 395492015652 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 395492015653 dimerization interface [polypeptide binding]; other site 395492015654 ligand binding site [chemical binding]; other site 395492015655 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 395492015656 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 395492015657 substrate-cofactor binding pocket; other site 395492015658 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492015659 catalytic residue [active] 395492015660 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 395492015661 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 395492015662 Surface antigen; Region: Bac_surface_Ag; cl03097 395492015663 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 395492015664 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 395492015665 Family of unknown function (DUF490); Region: DUF490; pfam04357 395492015666 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 395492015667 Helix-turn-helix domains; Region: HTH; cl00088 395492015668 Arginase family; Region: Arginase; cl00306 395492015669 ornithine--oxo-acid transaminase; Reviewed; Region: rocD; PRK00854 395492015670 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 395492015671 inhibitor-cofactor binding pocket; inhibition site 395492015672 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492015673 catalytic residue [active] 395492015674 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 395492015675 putative CheA interaction surface; other site 395492015676 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395492015677 PAS domain; Region: PAS_9; pfam13426 395492015678 putative active site [active] 395492015679 heme pocket [chemical binding]; other site 395492015680 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 395492015681 PAS domain; Region: PAS_9; pfam13426 395492015682 putative active site [active] 395492015683 heme pocket [chemical binding]; other site 395492015684 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395492015685 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395492015686 dimer interface [polypeptide binding]; other site 395492015687 putative CheW interface [polypeptide binding]; other site 395492015688 Oxalate/Formate Antiporter; Region: 2A0111; TIGR00890 395492015689 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 395492015690 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 395492015691 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 395492015692 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 395492015693 catalytic loop [active] 395492015694 iron binding site [ion binding]; other site 395492015695 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 395492015696 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 395492015697 [4Fe-4S] binding site [ion binding]; other site 395492015698 molybdopterin cofactor binding site; other site 395492015699 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 395492015700 molybdopterin cofactor binding site; other site 395492015701 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of...; Region: TRX_Fd_FDH_beta; cd03063 395492015702 putative dimer interface [polypeptide binding]; other site 395492015703 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 395492015704 SLBB domain; Region: SLBB; pfam10531 395492015705 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 395492015706 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 395492015707 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, NAD-dependent formate dehydrogenase (FDH) gamma subunit; composed of proteins similar to the gamma subunit of NAD-linked FDH of Ralstonia eutropha, a...; Region: TRX_Fd_NuoE_FDH_gamma; cd03081 395492015708 putative dimer interface [polypeptide binding]; other site 395492015709 [2Fe-2S] cluster binding site [ion binding]; other site 395492015710 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395492015711 Helix-turn-helix domains; Region: HTH; cl00088 395492015712 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 395492015713 dimerization interface [polypeptide binding]; other site 395492015714 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 395492015715 dimerization interface [polypeptide binding]; other site 395492015716 putative DNA binding site [nucleotide binding]; other site 395492015717 putative Zn2+ binding site [ion binding]; other site 395492015718 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 395492015719 classical (c) SDRs; Region: SDR_c; cd05233 395492015720 NAD(P) binding site [chemical binding]; other site 395492015721 active site 395492015722 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 395492015723 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 395492015724 DNA binding residues [nucleotide binding] 395492015725 dimer interface [polypeptide binding]; other site 395492015726 [2Fe-2S] cluster binding site [ion binding]; other site 395492015727 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 395492015728 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 395492015729 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 395492015730 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 395492015731 Walker A/P-loop; other site 395492015732 ATP binding site [chemical binding]; other site 395492015733 Q-loop/lid; other site 395492015734 ABC transporter signature motif; other site 395492015735 Walker B; other site 395492015736 D-loop; other site 395492015737 H-loop/switch region; other site 395492015738 NMT1-like family; Region: NMT1_2; cl15260 395492015739 NMT1/THI5 like; Region: NMT1; pfam09084 395492015740 OpgC protein; Region: OpgC_C; cl00792 395492015741 Bacterial sugar transferase; Region: Bac_transf; cl00939 395492015742 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 395492015743 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 395492015744 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 395492015745 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 395492015746 F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a...; Region: F1-ATPase_beta; cd01133 395492015747 alpha subunit interaction interface [polypeptide binding]; other site 395492015748 Walker A motif; other site 395492015749 ATP binding site [chemical binding]; other site 395492015750 Walker B motif; other site 395492015751 inhibitor binding site; inhibition site 395492015752 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 395492015753 ATP synthase; Region: ATP-synt; cl00365 395492015754 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 395492015755 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 395492015756 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 395492015757 F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to...; Region: F1_ATPase_alpha; cd01132 395492015758 beta subunit interaction interface [polypeptide binding]; other site 395492015759 Walker A motif; other site 395492015760 ATP binding site [chemical binding]; other site 395492015761 Walker B motif; other site 395492015762 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 395492015763 Plant ATP synthase F0; Region: YMF19; cl07975 395492015764 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 395492015765 primosome assembly protein PriA; Validated; Region: PRK05580 395492015766 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 395492015767 ATP binding site [chemical binding]; other site 395492015768 putative Mg++ binding site [ion binding]; other site 395492015769 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492015770 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 395492015771 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 395492015772 inhibitor site; inhibition site 395492015773 active site 395492015774 dimer interface [polypeptide binding]; other site 395492015775 catalytic residue [active] 395492015776 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395492015777 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395492015778 putative acyl-acceptor binding pocket; other site 395492015779 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 395492015780 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 395492015781 active site 395492015782 DNA binding site [nucleotide binding] 395492015783 Int/Topo IB signature motif; other site 395492015784 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3735 395492015785 TraB family; Region: TraB; cl12050 395492015786 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 395492015787 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 395492015788 galactonate dehydratase; Provisional; Region: PRK14017 395492015789 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 395492015790 active site pocket [active] 395492015791 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395492015792 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395492015793 Walker A/P-loop; other site 395492015794 ATP binding site [chemical binding]; other site 395492015795 Q-loop/lid; other site 395492015796 ABC transporter signature motif; other site 395492015797 Walker B; other site 395492015798 D-loop; other site 395492015799 H-loop/switch region; other site 395492015800 TOBE domain; Region: TOBE_2; cl01440 395492015801 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395492015802 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 395492015803 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492015804 dimer interface [polypeptide binding]; other site 395492015805 conserved gate region; other site 395492015806 putative PBP binding loops; other site 395492015807 ABC-ATPase subunit interface; other site 395492015808 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 395492015809 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492015810 dimer interface [polypeptide binding]; other site 395492015811 conserved gate region; other site 395492015812 putative PBP binding loops; other site 395492015813 ABC-ATPase subunit interface; other site 395492015814 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395492015815 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492015816 Transcriptional regulators [Transcription]; Region: GntR; COG1802 395492015817 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395492015818 DNA-binding site [nucleotide binding]; DNA binding site 395492015819 FCD domain; Region: FCD; cl11656 395492015820 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 395492015821 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 395492015822 active site pocket [active] 395492015823 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 395492015824 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 395492015825 active site pocket [active] 395492015826 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 395492015827 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 395492015828 active site pocket [active] 395492015829 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 395492015830 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492015831 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395492015832 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 395492015833 LysE type translocator; Region: LysE; cl00565 395492015834 short chain dehydrogenase; Provisional; Region: PRK06123 395492015835 classical (c) SDRs; Region: SDR_c; cd05233 395492015836 NAD(P) binding site [chemical binding]; other site 395492015837 active site 395492015838 Protein of unknown function (DUF4241); Region: DUF4241; pfam14025 395492015839 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 395492015840 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 395492015841 E3 interaction surface; other site 395492015842 lipoyl attachment site [posttranslational modification]; other site 395492015843 e3 binding domain; Region: E3_binding; pfam02817 395492015844 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 395492015845 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 395492015846 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 395492015847 TPP-binding site [chemical binding]; other site 395492015848 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 395492015849 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 395492015850 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492015851 CoA-ligase; Region: Ligase_CoA; cl02894 395492015852 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 395492015853 ATP-grasp domain; Region: ATP-grasp_4; cl03087 395492015854 CoA-ligase; Region: Ligase_CoA; cl02894 395492015855 malate dehydrogenase; Reviewed; Region: PRK06223 395492015856 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 395492015857 NAD(P) binding site [chemical binding]; other site 395492015858 dimer interface [polypeptide binding]; other site 395492015859 tetramer (dimer of dimers) interface [polypeptide binding]; other site 395492015860 substrate binding site [chemical binding]; other site 395492015861 Predicted ATPase [General function prediction only]; Region: COG1485 395492015862 Protease inhibitor Inh; Region: Inh; pfam02974 395492015863 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 395492015864 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 395492015865 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 395492015866 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492015867 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 395492015868 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit-like; composed of predominantly uncharacterized bacterial proteins with similarity to the E. coli SdhD subunit. One characterized protein is the respiratory...; Region: SQR_TypeC_SdhD_like; cd03495 395492015869 putative SdhC subunit interface [polypeptide binding]; other site 395492015870 putative proximal heme binding site [chemical binding]; other site 395492015871 putative Iron-sulfur protein interface [polypeptide binding]; other site 395492015872 putative proximal quinone binding site; other site 395492015873 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 395492015874 Iron-sulfur protein interface; other site 395492015875 proximal quinone binding site [chemical binding]; other site 395492015876 SdhD (CybS) interface [polypeptide binding]; other site 395492015877 proximal heme binding site [chemical binding]; other site 395492015878 Predicted methyltransferase [General function prediction only]; Region: COG3897 395492015879 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 395492015880 EVE domain; Region: EVE; cl00728 395492015881 YCII-related domain; Region: YCII; cl00999 395492015882 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 395492015883 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492015884 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 395492015885 UGMP family protein; Validated; Region: PRK09604 395492015886 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 395492015887 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 395492015888 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cl03189 395492015889 domain interfaces; other site 395492015890 active site 395492015891 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 395492015892 active site 395492015893 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 395492015894 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4223 395492015895 Uncharacterized membrane-bound protein [Function unknown]; Region: COG3898 395492015896 HemY protein N-terminus; Region: HemY_N; pfam07219 395492015897 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 395492015898 putative metal binding site [ion binding]; other site 395492015899 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 395492015900 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 395492015901 catalytic triad [active] 395492015902 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395492015903 H+ Antiporter protein; Region: 2A0121; TIGR00900 395492015904 putative substrate translocation pore; other site 395492015905 YGGT family; Region: YGGT; cl00508 395492015906 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 395492015907 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 395492015908 dimer interface [polypeptide binding]; other site 395492015909 substrate binding site [chemical binding]; other site 395492015910 metal binding sites [ion binding]; metal-binding site 395492015911 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 395492015912 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395492015913 Coenzyme A binding pocket [chemical binding]; other site 395492015914 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 395492015915 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 395492015916 G1 box; other site 395492015917 putative GEF interaction site [polypeptide binding]; other site 395492015918 GTP/Mg2+ binding site [chemical binding]; other site 395492015919 Switch I region; other site 395492015920 G2 box; other site 395492015921 G3 box; other site 395492015922 Switch II region; other site 395492015923 G4 box; other site 395492015924 G5 box; other site 395492015925 BipA_TypA_II: domain II of BipA (also called TypA) having homology to domain II of the elongation factors (EFs) EF-G and EF-Tu. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a...; Region: BipA_TypA_II; cd03691 395492015926 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 395492015927 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 395492015928 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 395492015929 active site 395492015930 Zn binding site [ion binding]; other site 395492015931 LysE type translocator; Region: LysE; cl00565 395492015932 EamA-like transporter family; Region: EamA; cl01037 395492015933 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 395492015934 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 395492015935 metal ion-dependent adhesion site (MIDAS); other site 395492015936 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492015937 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492015938 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 395492015939 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 395492015940 ANP binding site [chemical binding]; other site 395492015941 Substrate Binding Site II [chemical binding]; other site 395492015942 Substrate Binding Site I [chemical binding]; other site 395492015943 hypothetical protein; Provisional; Region: PRK06194 395492015944 classical (c) SDRs; Region: SDR_c; cd05233 395492015945 NAD(P) binding site [chemical binding]; other site 395492015946 active site 395492015947 LysE type translocator; Region: LysE; cl00565 395492015948 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 395492015949 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492015950 Walker A/P-loop; other site 395492015951 ATP binding site [chemical binding]; other site 395492015952 Q-loop/lid; other site 395492015953 ABC transporter signature motif; other site 395492015954 Walker B; other site 395492015955 D-loop; other site 395492015956 H-loop/switch region; other site 395492015957 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 395492015958 TM-ABC transporter signature motif; other site 395492015959 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 395492015960 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 395492015961 zinc binding site [ion binding]; other site 395492015962 putative ligand binding site [chemical binding]; other site 395492015963 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 395492015964 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 395492015965 FeS/SAM binding site; other site 395492015966 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 395492015967 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395492015968 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 395492015969 DNA binding residues [nucleotide binding] 395492015970 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 395492015971 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_b; cd00914 395492015972 aromatic arch; other site 395492015973 DCoH dimer interaction site [polypeptide binding]; other site 395492015974 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 395492015975 DCoH tetramer interaction site [polypeptide binding]; other site 395492015976 substrate binding site [chemical binding]; other site 395492015977 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 395492015978 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 395492015979 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 395492015980 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 395492015981 active site 395492015982 catalytic triad [active] 395492015983 oxyanion hole [active] 395492015984 switch loop; other site 395492015985 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 395492015986 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 395492015987 Walker A/P-loop; other site 395492015988 ATP binding site [chemical binding]; other site 395492015989 Q-loop/lid; other site 395492015990 ABC transporter signature motif; other site 395492015991 Walker B; other site 395492015992 D-loop; other site 395492015993 H-loop/switch region; other site 395492015994 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 395492015995 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 395492015996 FtsX-like permease family; Region: FtsX; cl15850 395492015997 FtsX-like permease family; Region: FtsX; cl15850 395492015998 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 395492015999 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 395492016000 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395492016001 Protein of unknown function (DUF2794); Region: DUF2794; pfam10984 395492016002 Protein of unknown function (DUF1223); Region: DUF1223; cl10501 395492016003 aconitate hydratase; Validated; Region: PRK09277 395492016004 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 395492016005 substrate binding site [chemical binding]; other site 395492016006 ligand binding site [chemical binding]; other site 395492016007 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 395492016008 substrate binding site [chemical binding]; other site 395492016009 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 395492016010 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492016011 Walker A/P-loop; other site 395492016012 ATP binding site [chemical binding]; other site 395492016013 Q-loop/lid; other site 395492016014 ABC transporter signature motif; other site 395492016015 Walker B; other site 395492016016 D-loop; other site 395492016017 H-loop/switch region; other site 395492016018 CcmB protein; Region: CcmB; cl01016 395492016019 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 395492016020 Heme exporter protein D (CcmD); Region: CcmD; cl11475 395492016021 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 395492016022 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 395492016023 catalytic residues [active] 395492016024 central insert; other site 395492016025 Protein of unknown function (DUF2585); Region: DUF2585; cl07906 395492016026 Intracellular septation protein A; Region: IspA; cl01098 395492016027 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 395492016028 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 395492016029 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492016030 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 395492016031 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 395492016032 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 395492016033 FeS/SAM binding site; other site 395492016034 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 395492016035 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 395492016036 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 395492016037 signal recognition particle protein; Provisional; Region: PRK10867 395492016038 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 395492016039 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 395492016040 P loop; other site 395492016041 GTP binding site [chemical binding]; other site 395492016042 Signal peptide binding domain; Region: SRP_SPB; pfam02978 395492016043 Chorismate mutase type II; Region: CM_2; cl00693 395492016044 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 395492016045 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 395492016046 RimM N-terminal domain; Region: RimM; pfam01782 395492016047 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 395492016048 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 395492016049 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 395492016050 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395492016051 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 395492016052 substrate binding pocket [chemical binding]; other site 395492016053 membrane-bound complex binding site; other site 395492016054 hinge residues; other site 395492016055 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492016056 dimer interface [polypeptide binding]; other site 395492016057 conserved gate region; other site 395492016058 putative PBP binding loops; other site 395492016059 ABC-ATPase subunit interface; other site 395492016060 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 395492016061 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 395492016062 substrate binding site [chemical binding]; other site 395492016063 ligand binding site [chemical binding]; other site 395492016064 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 395492016065 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 395492016066 active site 395492016067 catalytic tetrad [active] 395492016068 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 395492016069 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 395492016070 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492016071 active site 395492016072 phosphorylation site [posttranslational modification] 395492016073 intermolecular recognition site; other site 395492016074 dimerization interface [polypeptide binding]; other site 395492016075 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 395492016076 DNA binding site [nucleotide binding] 395492016077 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 395492016078 ligand binding site [chemical binding]; other site 395492016079 flexible hinge region; other site 395492016080 Domain of unknown function (DUF4343); Region: DUF4343; pfam14243 395492016081 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 395492016082 putative catalytic site [active] 395492016083 putative phosphate binding site [ion binding]; other site 395492016084 active site 395492016085 metal binding site A [ion binding]; metal-binding site 395492016086 DNA binding site [nucleotide binding] 395492016087 putative AP binding site [nucleotide binding]; other site 395492016088 putative metal binding site B [ion binding]; other site 395492016089 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 395492016090 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 395492016091 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 395492016092 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492016093 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 395492016094 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 395492016095 Nitrogen regulatory protein P-II; Region: P-II; cl00412 395492016096 Nitrogen regulatory protein P-II; Region: P-II; smart00938 395492016097 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 395492016098 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 395492016099 active site 395492016100 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 395492016101 catalytic triad [active] 395492016102 dimer interface [polypeptide binding]; other site 395492016103 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07333 395492016104 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492016105 Trm112p-like protein; Region: Trm112p; cl01066 395492016106 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 395492016107 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 395492016108 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 395492016109 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 395492016110 TPR motif; other site 395492016111 binding surface 395492016112 Uncharacterized conserved protein [Function unknown]; Region: COG3760 395492016113 This CD includes bacterial (Agrobacterium tumefaciens and Caulobacter crescentus ProX, and Clostridium sticklandii PrdX) and eukaryotic (Plasmodium falciparum N-terminal ProRS editing domain) sequences. The C. sticklandii PrdX protein, a homolog of the...; Region: PrdX_deacylase; cd04335 395492016114 putative deacylase active site [active] 395492016115 EVE domain; Region: EVE; cl00728 395492016116 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3440 395492016117 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 395492016118 Uncharacterized conserved protein [Function unknown]; Region: COG5476 395492016119 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 395492016120 MlrC C-terminus; Region: MlrC_C; pfam07171 395492016121 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 395492016122 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 395492016123 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5368 395492016124 Putative glucoamylase; Region: Glycoamylase; pfam10091 395492016125 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 395492016126 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 395492016127 Walker A/P-loop; other site 395492016128 ATP binding site [chemical binding]; other site 395492016129 Q-loop/lid; other site 395492016130 ABC transporter signature motif; other site 395492016131 Walker B; other site 395492016132 D-loop; other site 395492016133 H-loop/switch region; other site 395492016134 TOBE domain; Region: TOBE_2; cl01440 395492016135 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 395492016136 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492016137 dimer interface [polypeptide binding]; other site 395492016138 conserved gate region; other site 395492016139 ABC-ATPase subunit interface; other site 395492016140 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 395492016141 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 395492016142 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492016143 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 395492016144 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395492016145 tetrameric interface [polypeptide binding]; other site 395492016146 NAD binding site [chemical binding]; other site 395492016147 catalytic residues [active] 395492016148 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492016149 FAD dependent oxidoreductase; Region: DAO; pfam01266 395492016150 Domain of unknown function (DUF1338); Region: DUF1338; cl02226 395492016151 Domain of unknown function (DUF1338); Region: DUF1338; cl02226 395492016152 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 395492016153 Helix-turn-helix domains; Region: HTH; cl00088 395492016154 The C-terminal substrate binding domain of LysR-type transcriptional regulators GcdR-like, contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_like; cd08481 395492016155 dimerization interface [polypeptide binding]; other site 395492016156 substrate binding pocket [chemical binding]; other site 395492016157 Helix-turn-helix domains; Region: HTH; cl00088 395492016158 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395492016159 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 395492016160 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 395492016161 MatE; Region: MatE; cl10513 395492016162 exosortase A system-associated hydrolase 2; Region: hydr2_PEP; TIGR03101 395492016163 exosortase A system-associated hydrolase 1; Region: hydr1_PEP; TIGR03100 395492016164 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 395492016165 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 395492016166 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 395492016167 Domain of unknown function (DUF1839); Region: DUF1839; pfam08893 395492016168 Gly_His_Pro_Ser_Thr_tRNA synthetase class II core domain. This domain is the core catalytic domain of tRNA synthetases of the subgroup containing glycyl, histidyl, prolyl, seryl and threonyl tRNA synthetases. It is primarily responsible for ATP-dependent...; Region: Gly_His_Pro_Ser_Thr_tRS_core; cd00670 395492016169 dimer interface [polypeptide binding]; other site 395492016170 motif 1; other site 395492016171 active site 395492016172 motif 2; other site 395492016173 motif 3; other site 395492016174 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 395492016175 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 395492016176 active site 395492016177 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 395492016178 active site 395492016179 Phosphopantetheine attachment site; Region: PP-binding; cl09936 395492016180 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 395492016181 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 395492016182 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 395492016183 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 395492016184 motif 1; other site 395492016185 dimer interface [polypeptide binding]; other site 395492016186 active site 395492016187 motif 2; other site 395492016188 motif 3; other site 395492016189 elongation factor P; Validated; Region: PRK00529 395492016190 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 395492016191 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 395492016192 RNA binding site [nucleotide binding]; other site 395492016193 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 395492016194 RNA binding site [nucleotide binding]; other site 395492016195 hypothetical protein; Provisional; Region: PRK02947 395492016196 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 395492016197 putative active site [active] 395492016198 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 395492016199 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 395492016200 active site 395492016201 dimer interface [polypeptide binding]; other site 395492016202 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 395492016203 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 395492016204 dimer interface [polypeptide binding]; other site 395492016205 active site 395492016206 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 395492016207 dimer interface [polypeptide binding]; other site 395492016208 active site 395492016209 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 395492016210 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395492016211 DNA-binding site [nucleotide binding]; DNA binding site 395492016212 UTRA domain; Region: UTRA; cl01230 395492016213 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 395492016214 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 395492016215 active site 395492016216 catalytic residues [active] 395492016217 homoserine O-succinyltransferase; Provisional; Region: PRK05368 395492016218 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 395492016219 proposed active site lysine [active] 395492016220 conserved cys residue [active] 395492016221 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 395492016222 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 395492016223 Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome. The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed...; Region: ABCD_peroxisomal_ALDP; cd03223 395492016224 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 395492016225 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 395492016226 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 395492016227 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 395492016228 Thiamine pyrophosphokinase; Region: TPK; cd07995 395492016229 active site 395492016230 dimerization interface [polypeptide binding]; other site 395492016231 thiamine binding site [chemical binding]; other site 395492016232 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 395492016233 Helix-turn-helix domains; Region: HTH; cl00088 395492016234 Helix-turn-helix domains; Region: HTH; cl00088 395492016235 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395492016236 putative substrate translocation pore; other site 395492016237 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395492016238 Putative Zn-dependent protease [General function prediction only]; Region: COG4784 395492016239 Peptidase family M48; Region: Peptidase_M48; cl12018 395492016240 RNA polymerase factor sigma-32; Reviewed; Region: rpoH2; PRK07500 395492016241 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395492016242 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 395492016243 DNA binding residues [nucleotide binding] 395492016244 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 395492016245 Ferredoxin [Energy production and conversion]; Region: COG1146 395492016246 4Fe-4S binding domain; Region: Fer4; cl02805 395492016247 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 395492016248 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 395492016249 RNA binding surface [nucleotide binding]; other site 395492016250 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492016251 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 395492016252 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 395492016253 nucleotide binding region [chemical binding]; other site 395492016254 ATP-binding site [chemical binding]; other site 395492016255 Protein of unknown function (DUF3309); Region: DUF3309; pfam11752 395492016256 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 395492016257 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 395492016258 NAD(P) binding site [chemical binding]; other site 395492016259 homotetramer interface [polypeptide binding]; other site 395492016260 homodimer interface [polypeptide binding]; other site 395492016261 active site 395492016262 putative acyltransferase; Provisional; Region: PRK05790 395492016263 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 395492016264 dimer interface [polypeptide binding]; other site 395492016265 active site 395492016266 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 395492016267 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 395492016268 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 395492016269 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 395492016270 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 395492016271 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 395492016272 putative C-terminal domain interface [polypeptide binding]; other site 395492016273 putative GSH binding site (G-site) [chemical binding]; other site 395492016274 putative dimer interface [polypeptide binding]; other site 395492016275 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 395492016276 putative N-terminal domain interface [polypeptide binding]; other site 395492016277 putative dimer interface [polypeptide binding]; other site 395492016278 putative substrate binding pocket (H-site) [chemical binding]; other site 395492016279 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5255 395492016280 Domain of unknown function (DUF1868); Region: 2H-phosphodiest; pfam08975 395492016281 Transglycosylase; Region: Transgly; cl07896 395492016282 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 395492016283 substrate binding pocket [chemical binding]; other site 395492016284 chain length determination region; other site 395492016285 substrate-Mg2+ binding site; other site 395492016286 catalytic residues [active] 395492016287 aspartate-rich region 1; other site 395492016288 active site lid residues [active] 395492016289 aspartate-rich region 2; other site 395492016290 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 395492016291 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 395492016292 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492016293 homodimer interface [polypeptide binding]; other site 395492016294 catalytic residue [active] 395492016295 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 395492016296 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 395492016297 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 395492016298 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395492016299 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395492016300 putative substrate translocation pore; other site 395492016301 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 395492016302 Helix-turn-helix domains; Region: HTH; cl00088 395492016303 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 395492016304 Predicted permeases [General function prediction only]; Region: RarD; COG2962 395492016305 EamA-like transporter family; Region: EamA; cl01037 395492016306 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395492016307 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 395492016308 substrate binding pocket [chemical binding]; other site 395492016309 membrane-bound complex binding site; other site 395492016310 hinge residues; other site 395492016311 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492016312 dimer interface [polypeptide binding]; other site 395492016313 conserved gate region; other site 395492016314 putative PBP binding loops; other site 395492016315 ABC-ATPase subunit interface; other site 395492016316 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 395492016317 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 395492016318 Walker A/P-loop; other site 395492016319 ATP binding site [chemical binding]; other site 395492016320 Q-loop/lid; other site 395492016321 ABC transporter signature motif; other site 395492016322 Walker B; other site 395492016323 D-loop; other site 395492016324 H-loop/switch region; other site 395492016325 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 395492016326 pyruvate carboxylase; Reviewed; Region: PRK12999 395492016327 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 395492016328 ATP-grasp domain; Region: ATP-grasp_4; cl03087 395492016329 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 395492016330 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 395492016331 active site 395492016332 catalytic residues [active] 395492016333 metal binding site [ion binding]; metal-binding site 395492016334 homodimer binding site [polypeptide binding]; other site 395492016335 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 395492016336 carboxyltransferase (CT) interaction site; other site 395492016337 biotinylation site [posttranslational modification]; other site 395492016338 Autoinducer binding domain; Region: Autoind_bind; pfam03472 395492016339 transcriptional regulator TraR; Provisional; Region: PRK13870 395492016340 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 395492016341 DNA binding residues [nucleotide binding] 395492016342 dimerization interface [polypeptide binding]; other site 395492016343 cyclic beta-1,2-glucan ABC transporter; Provisional; Region: PRK13657 395492016344 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 395492016345 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and...; Region: ABCC_Glucan_exporter_like; cd03254 395492016346 Walker A/P-loop; other site 395492016347 ATP binding site [chemical binding]; other site 395492016348 Q-loop/lid; other site 395492016349 ABC transporter signature motif; other site 395492016350 Walker B; other site 395492016351 D-loop; other site 395492016352 H-loop/switch region; other site 395492016353 Cupin domain; Region: Cupin_2; cl09118 395492016354 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_5; cd07238 395492016355 dimer interface [polypeptide binding]; other site 395492016356 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395492016357 OpgC protein; Region: OpgC_C; cl00792 395492016358 Acyltransferase family; Region: Acyl_transf_3; pfam01757 395492016359 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 395492016360 Putative glucoamylase; Region: Glycoamylase; pfam10091 395492016361 Putative carbohydrate binding domain; Region: CBM_X; cl05621 395492016362 Glycosyltransferase family 36; Region: Glyco_transf_36; pfam06165 395492016363 Glycosyltransferase 36 associated family; Region: GT36_AF; pfam06205 395492016364 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 395492016365 Putative carbohydrate binding domain; Region: CBM_X; cl05621 395492016366 Glycosyltransferase family 36; Region: Glyco_transf_36; pfam06165 395492016367 Glycosyltransferase 36 associated family; Region: GT36_AF; pfam06205 395492016368 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 395492016369 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 395492016370 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395492016371 Walker A/P-loop; other site 395492016372 ATP binding site [chemical binding]; other site 395492016373 Q-loop/lid; other site 395492016374 ABC transporter signature motif; other site 395492016375 Walker B; other site 395492016376 D-loop; other site 395492016377 H-loop/switch region; other site 395492016378 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 395492016379 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395492016380 Walker A/P-loop; other site 395492016381 ATP binding site [chemical binding]; other site 395492016382 Q-loop/lid; other site 395492016383 ABC transporter signature motif; other site 395492016384 Walker B; other site 395492016385 D-loop; other site 395492016386 H-loop/switch region; other site 395492016387 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395492016388 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 395492016389 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492016390 dimer interface [polypeptide binding]; other site 395492016391 conserved gate region; other site 395492016392 putative PBP binding loops; other site 395492016393 ABC-ATPase subunit interface; other site 395492016394 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 395492016395 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492016396 dimer interface [polypeptide binding]; other site 395492016397 conserved gate region; other site 395492016398 putative PBP binding loops; other site 395492016399 ABC-ATPase subunit interface; other site 395492016400 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 395492016401 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 395492016402 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 395492016403 active site 395492016404 dimer interface [polypeptide binding]; other site 395492016405 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 395492016406 TM-ABC transporter signature motif; other site 395492016407 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 395492016408 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 395492016409 Walker A/P-loop; other site 395492016410 ATP binding site [chemical binding]; other site 395492016411 Q-loop/lid; other site 395492016412 ABC transporter signature motif; other site 395492016413 Walker B; other site 395492016414 D-loop; other site 395492016415 H-loop/switch region; other site 395492016416 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 395492016417 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 395492016418 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 395492016419 putative ligand binding site [chemical binding]; other site 395492016420 Domain of unknown function (DUF1993); Region: DUF1993; cl01567 395492016421 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 395492016422 Sulfatase; Region: Sulfatase; cl10460 395492016423 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 395492016424 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 395492016425 NAD binding site [chemical binding]; other site 395492016426 homodimer interface [polypeptide binding]; other site 395492016427 active site 395492016428 substrate binding site [chemical binding]; other site 395492016429 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 395492016430 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395492016431 Coenzyme A binding pocket [chemical binding]; other site 395492016432 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 395492016433 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 395492016434 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 395492016435 non-specific DNA binding site [nucleotide binding]; other site 395492016436 salt bridge; other site 395492016437 sequence-specific DNA binding site [nucleotide binding]; other site 395492016438 Domain of unknown function (DUF955); Region: DUF955; cl01076 395492016439 Domain of unknown function (DUF955); Region: DUF955; cl01076 395492016440 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 395492016441 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 395492016442 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 395492016443 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395492016444 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 395492016445 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395492016446 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 395492016447 putative catalytic site [active] 395492016448 putative metal binding site [ion binding]; other site 395492016449 putative phosphate binding site [ion binding]; other site 395492016450 GTPase CgtA; Reviewed; Region: obgE; PRK12299 395492016451 GTP1/OBG; Region: GTP1_OBG; pfam01018 395492016452 Obg GTPase; Region: Obg; cd01898 395492016453 G1 box; other site 395492016454 GTP/Mg2+ binding site [chemical binding]; other site 395492016455 Switch I region; other site 395492016456 G2 box; other site 395492016457 G3 box; other site 395492016458 Switch II region; other site 395492016459 G4 box; other site 395492016460 G5 box; other site 395492016461 gamma-glutamyl kinase; Provisional; Region: PRK05429 395492016462 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 395492016463 nucleotide binding site [chemical binding]; other site 395492016464 homotetrameric interface [polypeptide binding]; other site 395492016465 putative phosphate binding site [ion binding]; other site 395492016466 putative allosteric binding site; other site 395492016467 PUA domain; Region: PUA; cl00607 395492016468 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 395492016469 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 395492016470 putative catalytic cysteine [active] 395492016471 Nicotinic acid mononucleotide adenylyltransferase [Coenzyme metabolism]; Region: NadD; COG1057 395492016472 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 395492016473 active site 395492016474 (T/H)XGH motif; other site 395492016475 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492016476 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 395492016477 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492016478 ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: ModC; COG4148 395492016479 Walker A/P-loop; other site 395492016480 ATP binding site [chemical binding]; other site 395492016481 Q-loop/lid; other site 395492016482 ABC transporter signature motif; other site 395492016483 Walker B; other site 395492016484 D-loop; other site 395492016485 H-loop/switch region; other site 395492016486 TOBE domain; Region: TOBE_2; cl01440 395492016487 Helix-turn-helix domains; Region: HTH; cl00088 395492016488 Oligomerisation domain; Region: Oligomerisation; cl00519 395492016489 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 395492016490 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 395492016491 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 395492016492 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 395492016493 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 395492016494 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 395492016495 protein binding site [polypeptide binding]; other site 395492016496 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 395492016497 Catalytic dyad [active] 395492016498 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 395492016499 NodB motif; other site 395492016500 putative active site [active] 395492016501 putative catalytic site [active] 395492016502 Zn binding site [ion binding]; other site 395492016503 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 395492016504 putative active site [active] 395492016505 Ap4A binding site [chemical binding]; other site 395492016506 nudix motif; other site 395492016507 putative metal binding site [ion binding]; other site 395492016508 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 395492016509 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 395492016510 heme binding site [chemical binding]; other site 395492016511 ferroxidase pore; other site 395492016512 ferroxidase diiron center [ion binding]; other site 395492016513 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 395492016514 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 395492016515 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 395492016516 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 395492016517 generic binding surface II; other site 395492016518 generic binding surface I; other site 395492016519 DNA Polymerase Y-family; Region: PolY_like; cd03468 395492016520 active site 395492016521 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 395492016522 DNA binding site [nucleotide binding] 395492016523 Cell division inhibitor SulA; Region: SulA; cl01880 395492016524 Possibl zinc metallo-peptidase; Region: DUF1025; cl01577 395492016525 Domain of unknown function (DUF1737); Region: DUF1737; cl10503 395492016526 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 395492016527 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_8; cd07246 395492016528 putative dimer interface [polypeptide binding]; other site 395492016529 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395492016530 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 395492016531 substrate binding site [chemical binding]; other site 395492016532 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 395492016533 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 395492016534 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395492016535 catalytic residue [active] 395492016536 tartrate dehydrogenase; Provisional; Region: PRK08194 395492016537 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 395492016538 PAP2_like proteins, Lipid A 1-phosphatase subfamily. Lipid A 1-phosphatase, or LpxE from Francisella novicida selectively dephosphorylates lipid A at the 1-position. Lipid A is the membrane-anchor component of lipopolysaccharides (LPS), the major...; Region: PAP2_lipid_A_1_phosphatase; cd03389 395492016539 active site 395492016540 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395492016541 putative substrate translocation pore; other site 395492016542 metabolite-proton symporter; Region: 2A0106; TIGR00883 395492016543 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 395492016544 FtsX-like permease family; Region: FtsX; cl15850 395492016545 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 395492016546 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 395492016547 Walker A/P-loop; other site 395492016548 ATP binding site [chemical binding]; other site 395492016549 Q-loop/lid; other site 395492016550 ABC transporter signature motif; other site 395492016551 Walker B; other site 395492016552 D-loop; other site 395492016553 H-loop/switch region; other site 395492016554 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 395492016555 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 395492016556 dimer interface [polypeptide binding]; other site 395492016557 active site 395492016558 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 395492016559 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492016560 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 395492016561 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 395492016562 Membrane-bound lytic murein transglycosylase B [Cell envelope biogenesis, outer membrane]; Region: MltB; COG2951 395492016563 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395492016564 metal binding site [ion binding]; metal-binding site 395492016565 active site 395492016566 I-site; other site 395492016567 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 395492016568 active site clefts [active] 395492016569 zinc binding site [ion binding]; other site 395492016570 dimer interface [polypeptide binding]; other site 395492016571 pyridoxamine kinase; Validated; Region: PRK05756 395492016572 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 395492016573 pyridoxal binding site [chemical binding]; other site 395492016574 dimer interface [polypeptide binding]; other site 395492016575 ATP binding site [chemical binding]; other site 395492016576 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 395492016577 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 395492016578 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 395492016579 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 395492016580 purine monophosphate binding site [chemical binding]; other site 395492016581 dimer interface [polypeptide binding]; other site 395492016582 putative catalytic residues [active] 395492016583 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 395492016584 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 395492016585 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 395492016586 16S rRNA methyltransferase B; Provisional; Region: PRK10901 395492016587 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 395492016588 putative RNA binding site [nucleotide binding]; other site 395492016589 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 395492016590 Peptidase family M48; Region: Peptidase_M48; cl12018 395492016591 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 395492016592 acetyl-CoA synthetase; Provisional; Region: PRK00174 395492016593 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 395492016594 AMP-binding enzyme; Region: AMP-binding; cl15778 395492016595 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 395492016596 Protein of unknown function (DUF1013); Region: DUF1013; cl11533 395492016597 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 395492016598 AMP-binding enzyme; Region: AMP-binding; cl15778 395492016599 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 395492016600 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 395492016601 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 395492016602 catalytic residue [active] 395492016603 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 395492016604 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 395492016605 HIGH motif; other site 395492016606 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 395492016607 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 395492016608 active site 395492016609 KMSKS motif; other site 395492016610 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 395492016611 tRNA binding surface [nucleotide binding]; other site 395492016612 Lipopolysaccharide-assembly; Region: LptE; cl01125 395492016613 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 395492016614 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 395492016615 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 395492016616 ParB-like nuclease domain; Region: ParBc; cl02129 395492016617 KorB domain; Region: KorB; pfam08535 395492016618 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 395492016619 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 395492016620 P-loop; other site 395492016621 Magnesium ion binding site [ion binding]; other site 395492016622 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 395492016623 Magnesium ion binding site [ion binding]; other site 395492016624 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 395492016625 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 395492016626 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492016627 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 395492016628 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 395492016629 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 395492016630 trmE is a tRNA modification GTPase; Region: trmE; cd04164 395492016631 G1 box; other site 395492016632 GTP/Mg2+ binding site [chemical binding]; other site 395492016633 Switch I region; other site 395492016634 G2 box; other site 395492016635 Switch II region; other site 395492016636 G3 box; other site 395492016637 G4 box; other site 395492016638 G5 box; other site 395492016639 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 395492016640 transcription termination factor Rho; Provisional; Region: rho; PRK09376 395492016641 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 395492016642 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 395492016643 RNA binding site [nucleotide binding]; other site 395492016644 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 395492016645 multimer interface [polypeptide binding]; other site 395492016646 Walker A motif; other site 395492016647 ATP binding site [chemical binding]; other site 395492016648 Walker B motif; other site 395492016649 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 395492016650 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 395492016651 substrate binding site [chemical binding]; other site 395492016652 active site 395492016653 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 395492016654 Maf-like protein; Region: Maf; pfam02545 395492016655 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 395492016656 active site 395492016657 dimer interface [polypeptide binding]; other site 395492016658 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 395492016659 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 395492016660 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 395492016661 shikimate binding site; other site 395492016662 NAD(P) binding site [chemical binding]; other site 395492016663 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 395492016664 Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis; Region: DPCK; cd02022 395492016665 CoA-binding site [chemical binding]; other site 395492016666 ATP-binding [chemical binding]; other site 395492016667 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 395492016668 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 395492016669 active site 395492016670 catalytic site [active] 395492016671 substrate binding site [chemical binding]; other site 395492016672 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cl00251 395492016673 SecA binding site; other site 395492016674 Preprotein binding site; other site 395492016675 FxsA cytoplasmic membrane protein; Region: FxsA; cl01148 395492016676 Tim44-like domain; Region: Tim44; cl09208 395492016677 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 395492016678 MltA specific insert domain; Region: MltA; cl08398 395492016679 3D domain; Region: 3D; cl01439 395492016680 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 395492016681 Smr domain; Region: Smr; cl02619 395492016682 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 395492016683 non-specific DNA binding site [nucleotide binding]; other site 395492016684 salt bridge; other site 395492016685 sequence-specific DNA binding site [nucleotide binding]; other site 395492016686 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 395492016687 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 395492016688 Mg2+ binding site [ion binding]; other site 395492016689 G-X-G motif; other site 395492016690 TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are; Region: TopoII_Trans_DNA_gyrase; cd00822 395492016691 anchoring element; other site 395492016692 dimer interface [polypeptide binding]; other site 395492016693 ATP binding site [chemical binding]; other site 395492016694 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 395492016695 active site 395492016696 putative metal-binding site [ion binding]; other site 395492016697 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 395492016698 Nitroreductase-like family 2. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_2; cd02138 395492016699 putative FMN binding site [chemical binding]; other site 395492016700 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; cl01424 395492016701 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 395492016702 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 395492016703 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 395492016704 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 395492016705 Protein of unknown function (DUF2852); Region: DUF2852; pfam11014 395492016706 Protein of unknown function DUF45; Region: DUF45; cl00636 395492016707 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are monomeric; Region: PRAI; cd00405 395492016708 active site 395492016709 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 395492016710 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 395492016711 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492016712 catalytic residue [active] 395492016713 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 395492016714 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 395492016715 substrate binding site [chemical binding]; other site 395492016716 active site 395492016717 catalytic residues [active] 395492016718 heterodimer interface [polypeptide binding]; other site 395492016719 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 395492016720 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 395492016721 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 395492016722 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 395492016723 catalytic residues [active] 395492016724 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 395492016725 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492016726 Family description; Region: UvrD_C_2; cl15862 395492016727 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 395492016728 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 395492016729 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 395492016730 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 395492016731 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 395492016732 Substrate binding site; other site 395492016733 metal-binding site 395492016734 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 395492016735 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 395492016736 Phosphotransferase enzyme family; Region: APH; pfam01636 395492016737 PAS fold; Region: PAS_7; pfam12860 395492016738 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 395492016739 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 395492016740 dimer interface [polypeptide binding]; other site 395492016741 phosphorylation site [posttranslational modification] 395492016742 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 395492016743 ATP binding site [chemical binding]; other site 395492016744 Mg2+ binding site [ion binding]; other site 395492016745 G-X-G motif; other site 395492016746 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 395492016747 S-adenosyl-L-homocysteine hydrolase (AdoHycase) catalyzes the hydrolysis of S-adenosyl-L-homocysteine (AdoHyc) to form adenosine (Ado) and homocysteine (Hcy). The equilibrium lies far on the side of AdoHyc synthesis, but in nature the removal of Ado and...; Region: AdoHcyase; cd00401 395492016748 oligomerization interface [polypeptide binding]; other site 395492016749 active site 395492016750 NAD+ binding site [chemical binding]; other site 395492016751 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 395492016752 dimerization domain swap beta strand [polypeptide binding]; other site 395492016753 regulatory protein interface [polypeptide binding]; other site 395492016754 active site 395492016755 regulatory phosphorylation site [posttranslational modification]; other site 395492016756 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 395492016757 active pocket/dimerization site; other site 395492016758 active site 395492016759 phosphorylation site [posttranslational modification] 395492016760 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 395492016761 Hpr binding site; other site 395492016762 active site 395492016763 homohexamer subunit interaction site [polypeptide binding]; other site 395492016764 Sensor N-terminal transmembrane domain; Region: Sensor_TM1; pfam13755 395492016765 Stimulus-sensing domain; Region: Stimulus_sens_1; pfam13756 395492016766 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 395492016767 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 395492016768 dimer interface [polypeptide binding]; other site 395492016769 phosphorylation site [posttranslational modification] 395492016770 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 395492016771 ATP binding site [chemical binding]; other site 395492016772 Mg2+ binding site [ion binding]; other site 395492016773 G-X-G motif; other site 395492016774 proteobacterial dedicated sortase system response regulator; Region: marine_sort_RR; TIGR03787 395492016775 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492016776 active site 395492016777 phosphorylation site [posttranslational modification] 395492016778 intermolecular recognition site; other site 395492016779 dimerization interface [polypeptide binding]; other site 395492016780 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 395492016781 DNA binding site [nucleotide binding] 395492016782 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 395492016783 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 395492016784 active site 395492016785 substrate-binding site [chemical binding]; other site 395492016786 metal-binding site [ion binding] 395492016787 ATP binding site [chemical binding]; other site 395492016788 RF-1 domain; Region: RF-1; cl02875 395492016789 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 395492016790 pantothenate kinase; Provisional; Region: PRK05439 395492016791 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point in...; Region: PanK; cd02025 395492016792 ATP-binding site [chemical binding]; other site 395492016793 CoA-binding site [chemical binding]; other site 395492016794 Mg2+-binding site [ion binding]; other site 395492016795 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 395492016796 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 395492016797 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 395492016798 substrate binding site [chemical binding]; other site 395492016799 glutamase interaction surface [polypeptide binding]; other site 395492016800 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]; Region: HisA; COG0106 395492016801 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 395492016802 catalytic residues [active] 395492016803 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 395492016804 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 395492016805 putative active site [active] 395492016806 oxyanion strand; other site 395492016807 catalytic triad [active] 395492016808 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 395492016809 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 395492016810 putative active site pocket [active] 395492016811 4-fold oligomerization interface [polypeptide binding]; other site 395492016812 metal binding residues [ion binding]; metal-binding site 395492016813 3-fold/trimer interface [polypeptide binding]; other site 395492016814 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 395492016815 active site 395492016816 HslU subunit interaction site [polypeptide binding]; other site 395492016817 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 395492016818 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 395492016819 Walker A motif; other site 395492016820 ATP binding site [chemical binding]; other site 395492016821 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492016822 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 395492016823 Protein of unknown function (DUF1402); Region: DUF1402; pfam07182 395492016824 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 395492016825 Malate synthase G (MSG), monomeric enzyme present in some bacteria. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate...; Region: malate_synt_G; cd00728 395492016826 active site 395492016827 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 395492016828 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 395492016829 Protein of unknown function (DUF1052); Region: DUF1052; cl02197 395492016830 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 395492016831 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492016832 active site 395492016833 phosphorylation site [posttranslational modification] 395492016834 intermolecular recognition site; other site 395492016835 dimerization interface [polypeptide binding]; other site 395492016836 Helix-turn-helix domains; Region: HTH; cl00088 395492016837 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395492016838 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 395492016839 dimer interface [polypeptide binding]; other site 395492016840 phosphorylation site [posttranslational modification] 395492016841 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 395492016842 ATP binding site [chemical binding]; other site 395492016843 Mg2+ binding site [ion binding]; other site 395492016844 G-X-G motif; other site 395492016845 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 395492016846 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 395492016847 ATP binding site [chemical binding]; other site 395492016848 putative Mg++ binding site [ion binding]; other site 395492016849 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 395492016850 nucleotide binding region [chemical binding]; other site 395492016851 ATP-binding site [chemical binding]; other site 395492016852 Helicase associated domain (HA2); Region: HA2; cl04503 395492016853 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 395492016854 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 395492016855 Family description; Region: UvrD_C_2; cl15862 395492016856 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395492016857 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 395492016858 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 395492016859 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395492016860 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395492016861 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 395492016862 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 395492016863 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492016864 Walker A/P-loop; other site 395492016865 ATP binding site [chemical binding]; other site 395492016866 Q-loop/lid; other site 395492016867 ABC transporter signature motif; other site 395492016868 Walker B; other site 395492016869 D-loop; other site 395492016870 H-loop/switch region; other site 395492016871 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 395492016872 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 395492016873 DNA binding residues [nucleotide binding] 395492016874 dimerization interface [polypeptide binding]; other site 395492016875 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 395492016876 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395492016877 NAD binding site [chemical binding]; other site 395492016878 putative substrate binding site 2 [chemical binding]; other site 395492016879 putative substrate binding site 1 [chemical binding]; other site 395492016880 active site 395492016881 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 395492016882 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 395492016883 NAD binding site [chemical binding]; other site 395492016884 homodimer interface [polypeptide binding]; other site 395492016885 active site 395492016886 substrate binding site [chemical binding]; other site 395492016887 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 395492016888 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 395492016889 active site 395492016890 Protein of unknown function (DUF995); Region: DUF995; pfam06191 395492016891 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; cl09200 395492016892 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395492016893 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492016894 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395492016895 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395492016896 DNA binding site [nucleotide binding] 395492016897 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 395492016898 ligand binding site [chemical binding]; other site 395492016899 dimerization interface [polypeptide binding]; other site 395492016900 Uncharacterized protein conserved in bacteria (DUF2264); Region: DUF2264; cl01752 395492016901 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492016902 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395492016903 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492016904 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 395492016905 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 395492016906 Protein of unknown function (DUF993); Region: DUF993; pfam06187 395492016907 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395492016908 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492016909 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395492016910 Helix-turn-helix domains; Region: HTH; cl00088 395492016911 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395492016912 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492016913 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492016914 dimer interface [polypeptide binding]; other site 395492016915 conserved gate region; other site 395492016916 putative PBP binding loops; other site 395492016917 ABC-ATPase subunit interface; other site 395492016918 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395492016919 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492016920 dimer interface [polypeptide binding]; other site 395492016921 conserved gate region; other site 395492016922 putative PBP binding loops; other site 395492016923 ABC-ATPase subunit interface; other site 395492016924 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395492016925 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492016926 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 395492016927 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395492016928 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395492016929 Walker A/P-loop; other site 395492016930 ATP binding site [chemical binding]; other site 395492016931 Q-loop/lid; other site 395492016932 ABC transporter signature motif; other site 395492016933 Walker B; other site 395492016934 D-loop; other site 395492016935 H-loop/switch region; other site 395492016936 TOBE domain; Region: TOBE_2; cl01440 395492016937 Choline Kinase (ChoK). The ChoK subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: ChoK; cd05151 395492016938 Phosphotransferase enzyme family; Region: APH; pfam01636 395492016939 active site 395492016940 ATP binding site [chemical binding]; other site 395492016941 substrate binding site [chemical binding]; other site 395492016942 dimer interface [polypeptide binding]; other site 395492016943 FAD dependent oxidoreductase; Region: DAO; pfam01266 395492016944 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492016945 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 395492016946 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 395492016947 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 395492016948 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 395492016949 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 395492016950 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 395492016951 Glucuronate isomerase; Region: UxaC; cl00829 395492016952 SlyX; Region: SlyX; cl01090 395492016953 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395492016954 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 395492016955 tetramerization interface [polypeptide binding]; other site 395492016956 NAD(P) binding site [chemical binding]; other site 395492016957 catalytic residues [active] 395492016958 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 395492016959 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 395492016960 inhibitor-cofactor binding pocket; inhibition site 395492016961 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492016962 catalytic residue [active] 395492016963 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 395492016964 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 395492016965 DNA binding residues [nucleotide binding] 395492016966 dimer interface [polypeptide binding]; other site 395492016967 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 395492016968 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 395492016969 Cupin domain; Region: Cupin_2; cl09118 395492016970 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 395492016971 catalytic site [active] 395492016972 putative active site [active] 395492016973 putative substrate binding site [chemical binding]; other site 395492016974 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 395492016975 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 395492016976 RNA binding site [nucleotide binding]; other site 395492016977 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 395492016978 RNA binding site [nucleotide binding]; other site 395492016979 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec3; cd05688 395492016980 RNA binding site [nucleotide binding]; other site 395492016981 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec4; cd05689 395492016982 RNA binding site [nucleotide binding]; other site 395492016983 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 395492016984 RNA binding site [nucleotide binding]; other site 395492016985 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 395492016986 RNA binding site [nucleotide binding]; other site 395492016987 cytidylate kinase; Provisional; Region: cmk; PRK00023 395492016988 Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor; Region: CMPK; cd02020 395492016989 CMP-binding site; other site 395492016990 The sites determining sugar specificity; other site 395492016991 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4530 395492016992 TolB amino-terminal domain; Region: TolB_N; cl00639 395492016993 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 395492016994 putative active site [active] 395492016995 putative metal binding residues [ion binding]; other site 395492016996 signature motif; other site 395492016997 putative dimer interface [polypeptide binding]; other site 395492016998 putative phosphate binding site [ion binding]; other site 395492016999 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 395492017000 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 395492017001 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07003 395492017002 Protein of unknown function (DUF3302); Region: DUF3302; pfam11742 395492017003 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 395492017004 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395492017005 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395492017006 Sulfate transporter family; Region: Sulfate_transp; cl15842 395492017007 high affinity sulphate transporter 1; Region: sulP; TIGR00815 395492017008 Sulfate transporter family; Region: Sulfate_transp; cl15842 395492017009 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 395492017010 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 395492017011 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 395492017012 Domain of unknown function DUF20; Region: UPF0118; pfam01594 395492017013 Ion channel; Region: Ion_trans_2; cl11596 395492017014 calcium/proton exchanger (cax); Region: cax; TIGR00378 395492017015 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 395492017016 TolB amino-terminal domain; Region: TolB_N; cl00639 395492017017 TolB amino-terminal domain; Region: TolB_N; cl00639 395492017018 Mechanosensitive ion channel; Region: MS_channel; pfam00924 395492017019 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4782 395492017020 Alpha/beta hydrolase of unknown function (DUF900); Region: DUF900; pfam05990 395492017021 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 395492017022 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 395492017023 putative active site [active] 395492017024 Predicted membrane protein [Function unknown]; Region: COG2860 395492017025 UPF0126 domain; Region: UPF0126; pfam03458 395492017026 UPF0126 domain; Region: UPF0126; pfam03458 395492017027 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 395492017028 metal binding site 2 [ion binding]; metal-binding site 395492017029 putative DNA binding helix; other site 395492017030 metal binding site 1 [ion binding]; metal-binding site 395492017031 dimer interface [polypeptide binding]; other site 395492017032 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 395492017033 active site 1 [active] 395492017034 dimer interface [polypeptide binding]; other site 395492017035 active site 2 [active] 395492017036 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 395492017037 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 395492017038 dimer interface [polypeptide binding]; other site 395492017039 active site 395492017040 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06505 395492017041 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 395492017042 NAD binding site [chemical binding]; other site 395492017043 homotetramer interface [polypeptide binding]; other site 395492017044 homodimer interface [polypeptide binding]; other site 395492017045 substrate binding site [chemical binding]; other site 395492017046 active site 395492017047 YcfA-like protein; Region: YcfA; cl00752 395492017048 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 395492017049 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 395492017050 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 395492017051 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 395492017052 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 395492017053 S-adenosylmethionine binding site [chemical binding]; other site 395492017054 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 395492017055 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 395492017056 RNase E interface [polypeptide binding]; other site 395492017057 trimer interface [polypeptide binding]; other site 395492017058 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 395492017059 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 395492017060 RNase E interface [polypeptide binding]; other site 395492017061 trimer interface [polypeptide binding]; other site 395492017062 active site 395492017063 Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH). PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to...; Region: PNPase_KH; cd02393 395492017064 putative nucleic acid binding region [nucleotide binding]; other site 395492017065 G-X-X-G motif; other site 395492017066 S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA; Region: S1_PNPase; cd04472 395492017067 RNA binding site [nucleotide binding]; other site 395492017068 domain interface; other site 395492017069 Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome; Region: Ribosomal_S15p_S13e; cd00353 395492017070 16S/18S rRNA binding site [nucleotide binding]; other site 395492017071 S13e-L30e interaction site [polypeptide binding]; other site 395492017072 25S rRNA binding site [nucleotide binding]; other site 395492017073 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395492017074 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 395492017075 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 395492017076 RNA binding site [nucleotide binding]; other site 395492017077 active site 395492017078 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 395492017079 Ribosome-binding factor A; Region: RBFA; cl00542 395492017080 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 395492017081 translation initiation factor IF-2; Region: IF-2; TIGR00487 395492017082 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 395492017083 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 395492017084 G1 box; other site 395492017085 putative GEF interaction site [polypeptide binding]; other site 395492017086 GTP/Mg2+ binding site [chemical binding]; other site 395492017087 Switch I region; other site 395492017088 G2 box; other site 395492017089 G3 box; other site 395492017090 Switch II region; other site 395492017091 G4 box; other site 395492017092 G5 box; other site 395492017093 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell; Region: IF2_mtIF2_II; cd03702 395492017094 Translation-initiation factor 2; Region: IF-2; pfam11987 395492017095 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor...; Region: mtIF2_IVc; cd03692 395492017096 hypothetical protein; Provisional; Region: PRK09190 395492017097 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 395492017098 putative RNA binding cleft [nucleotide binding]; other site 395492017099 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 395492017100 NusA N-terminal domain; Region: NusA_N; pfam08529 395492017101 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 395492017102 RNA binding site [nucleotide binding]; other site 395492017103 homodimer interface [polypeptide binding]; other site 395492017104 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 395492017105 NusA_K homology RNA-binding domain (KH). NusA is an essential multifunctional transcription elongation factor that is universally conserved among prokaryotes and archaea. NusA anti-termination function plays an important role in the expression of...; Region: NusA_KH; cd02134 395492017106 G-X-X-G motif; other site 395492017107 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 395492017108 ribosome maturation protein RimP; Reviewed; Region: PRK00092 395492017109 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 395492017110 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 395492017111 Sm1 motif; other site 395492017112 D1 - D2 interaction site; other site 395492017113 D3 - B interaction site; other site 395492017114 Hfq - Hfq interaction site; other site 395492017115 RNA binding pocket [nucleotide binding]; other site 395492017116 Sm2 motif; other site 395492017117 Transmembrane secretion effector; Region: MFS_3; pfam05977 395492017118 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395492017119 putative substrate translocation pore; other site 395492017120 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 395492017121 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395492017122 Coenzyme A binding pocket [chemical binding]; other site 395492017123 Transglycosylase SLT domain; Region: SLT_2; pfam13406 395492017124 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 395492017125 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 395492017126 recombination protein RecR; Reviewed; Region: recR; PRK00076 395492017127 RecR protein; Region: RecR; pfam02132 395492017128 TOPRIM_recR: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in Escherichia coli RecR. RecR participates in the RecFOR pathway of homologous recombinational repair in prokaryotes. This pathway provides a...; Region: TOPRIM_recR; cd01025 395492017129 putative active site [active] 395492017130 putative metal-binding site [ion binding]; other site 395492017131 tetramer interface [polypeptide binding]; other site 395492017132 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 395492017133 MOSC domain; Region: MOSC; pfam03473 395492017134 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 395492017135 DNA polymerase III subunits gamma and tau; Validated; Region: PRK09111 395492017136 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 395492017137 Walker A motif; other site 395492017138 ATP binding site [chemical binding]; other site 395492017139 Walker B motif; other site 395492017140 arginine finger; other site 395492017141 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 395492017142 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 395492017143 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 395492017144 nucleotide binding site/active site [active] 395492017145 HIT family signature motif; other site 395492017146 catalytic residue [active] 395492017147 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 395492017148 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 395492017149 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 395492017150 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 395492017151 putative NADH binding site [chemical binding]; other site 395492017152 putative active site [active] 395492017153 nudix motif; other site 395492017154 putative metal binding site [ion binding]; other site 395492017155 Helix-turn-helix domains; Region: HTH; cl00088 395492017156 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 395492017157 WYL domain; Region: WYL; cl14852 395492017158 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_11; cd07261 395492017159 putative dimer interface [polypeptide binding]; other site 395492017160 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395492017161 prephenate dehydratase; Provisional; Region: PRK11899 395492017162 Prephenate dehydratase; Region: PDT; pfam00800 395492017163 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 395492017164 putative L-Phe binding site [chemical binding]; other site 395492017165 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 395492017166 Ligand binding site; other site 395492017167 oligomer interface; other site 395492017168 Cytochrome c; Region: Cytochrom_C; cl11414 395492017169 Membrane transport protein; Region: Mem_trans; cl09117 395492017170 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular adenosine...; Region: adenosine_kinase; cd01168 395492017171 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 395492017172 substrate binding site [chemical binding]; other site 395492017173 ATP binding site [chemical binding]; other site 395492017174 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3807 395492017175 Bacterial SH3 domain; Region: SH3_3; cl02551 395492017176 Bacterial SH3 domain; Region: SH3_3; cl02551 395492017177 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 395492017178 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492017179 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 395492017180 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395492017181 Coenzyme A binding pocket [chemical binding]; other site 395492017182 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 395492017183 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 395492017184 ATP binding site [chemical binding]; other site 395492017185 substrate interface [chemical binding]; other site 395492017186 recombination protein F; Reviewed; Region: recF; PRK00064 395492017187 RecF is a recombinational DNA repair ATPase that maintains replication in the presence of DNA damage. When replication is prematurely disrupted by DNA damage, several recF pathway gene products play critical roles processing the arrested replication...; Region: ABC_RecF; cd03242 395492017188 Walker A/P-loop; other site 395492017189 ATP binding site [chemical binding]; other site 395492017190 Q-loop/lid; other site 395492017191 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492017192 ABC transporter signature motif; other site 395492017193 Walker B; other site 395492017194 D-loop; other site 395492017195 H-loop/switch region; other site 395492017196 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 395492017197 non-specific DNA binding site [nucleotide binding]; other site 395492017198 salt bridge; other site 395492017199 sequence-specific DNA binding site [nucleotide binding]; other site 395492017200 chaperone protein DnaJ; Provisional; Region: PRK10767 395492017201 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 395492017202 HSP70 interaction site [polypeptide binding]; other site 395492017203 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 395492017204 substrate binding site [polypeptide binding]; other site 395492017205 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 395492017206 Zn binding sites [ion binding]; other site 395492017207 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 395492017208 dimer interface [polypeptide binding]; other site 395492017209 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 395492017210 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 395492017211 Transglycosylase; Region: Transgly; cl07896 395492017212 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 395492017213 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 395492017214 Uncharacterized protein with a bacterial SH3 domain homologue [Function unknown]; Region: COG4991 395492017215 Bacterial SH3 domain; Region: SH3_3; cl02551 395492017216 hypothetical protein; Validated; Region: PRK09104 395492017217 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 395492017218 metal binding site [ion binding]; metal-binding site 395492017219 putative dimer interface [polypeptide binding]; other site 395492017220 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 395492017221 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 395492017222 PAS domain S-box; Region: sensory_box; TIGR00229 395492017223 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 395492017224 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395492017225 metal binding site [ion binding]; metal-binding site 395492017226 active site 395492017227 I-site; other site 395492017228 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 395492017229 Helix-turn-helix domains; Region: HTH; cl00088 395492017230 transcriptional regulator SlyA; Provisional; Region: PRK03573 395492017231 DNA polymerase I; Region: pola; TIGR00593 395492017232 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 395492017233 active site 395492017234 metal binding site 1 [ion binding]; metal-binding site 395492017235 putative 5' ssDNA interaction site; other site 395492017236 metal binding site 3; metal-binding site 395492017237 metal binding site 2 [ion binding]; metal-binding site 395492017238 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 395492017239 putative DNA binding site [nucleotide binding]; other site 395492017240 putative metal binding site [ion binding]; other site 395492017241 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 395492017242 active site 395492017243 catalytic site [active] 395492017244 substrate binding site [chemical binding]; other site 395492017245 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 395492017246 active site 395492017247 DNA binding site [nucleotide binding] 395492017248 catalytic site [active] 395492017249 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492017250 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 395492017251 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492017252 dimer interface [polypeptide binding]; other site 395492017253 conserved gate region; other site 395492017254 putative PBP binding loops; other site 395492017255 ABC-ATPase subunit interface; other site 395492017256 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492017257 putative PBP binding loops; other site 395492017258 dimer interface [polypeptide binding]; other site 395492017259 ABC-ATPase subunit interface; other site 395492017260 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 395492017261 PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D. PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required...; Region: ABC_PotA_N; cd03300 395492017262 Walker A/P-loop; other site 395492017263 ATP binding site [chemical binding]; other site 395492017264 Q-loop/lid; other site 395492017265 ABC transporter signature motif; other site 395492017266 Walker B; other site 395492017267 D-loop; other site 395492017268 H-loop/switch region; other site 395492017269 TOBE domain; Region: TOBE_2; cl01440 395492017270 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 395492017271 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492017272 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 395492017273 Helix-turn-helix domains; Region: HTH; cl00088 395492017274 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 395492017275 dimerization interface [polypeptide binding]; other site 395492017276 substrate binding pocket [chemical binding]; other site 395492017277 Uncharacterized protein family (UPF0157); Region: UPF0157; cl00987 395492017278 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 395492017279 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492017280 active site 395492017281 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492017282 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 395492017283 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 395492017284 PhnM is believed to be a subunit of the membrane associated C-P lyase complex. C-P lyase is thought to catalyze the direct cleavage of inactivated C-P bonds to yield inorganic phosphate and the corresponding hydrocarbons. It is responsible for cleavage...; Region: PhnM; cd01306 395492017285 active site 395492017286 Protein of unknown function (DUF1045); Region: DUF1045; cl15435 395492017287 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 395492017288 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492017289 dimer interface [polypeptide binding]; other site 395492017290 conserved gate region; other site 395492017291 putative PBP binding loops; other site 395492017292 ABC-ATPase subunit interface; other site 395492017293 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 395492017294 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492017295 dimer interface [polypeptide binding]; other site 395492017296 conserved gate region; other site 395492017297 ABC-ATPase subunit interface; other site 395492017298 NMT1-like family; Region: NMT1_2; cl15260 395492017299 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 395492017300 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 395492017301 ABC-type phosphate/phosphonate transport system. Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all...; Region: ABC_PhnC_transporter; cd03256 395492017302 Walker A/P-loop; other site 395492017303 ATP binding site [chemical binding]; other site 395492017304 Q-loop/lid; other site 395492017305 ABC transporter signature motif; other site 395492017306 Walker B; other site 395492017307 D-loop; other site 395492017308 H-loop/switch region; other site 395492017309 phosphonate metabolim protein, transferase hexapeptide repeat family; Region: phn_thr-fam; TIGR03308 395492017310 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 395492017311 trimer interface [polypeptide binding]; other site 395492017312 active site 395492017313 substrate binding site [chemical binding]; other site 395492017314 CoA binding site [chemical binding]; other site 395492017315 ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PhnL; COG4778 395492017316 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492017317 Walker A/P-loop; other site 395492017318 ATP binding site [chemical binding]; other site 395492017319 Q-loop/lid; other site 395492017320 ABC transporter signature motif; other site 395492017321 Walker B; other site 395492017322 D-loop; other site 395492017323 H-loop/switch region; other site 395492017324 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 395492017325 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395492017326 Walker A/P-loop; other site 395492017327 ATP binding site [chemical binding]; other site 395492017328 Q-loop/lid; other site 395492017329 ABC transporter signature motif; other site 395492017330 Walker B; other site 395492017331 D-loop; other site 395492017332 H-loop/switch region; other site 395492017333 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395492017334 Phosphonate metabolism protein PhnJ; Region: PhnJ; cl01457 395492017335 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; cl01456 395492017336 Bacterial phosphonate metabolism protein (PhnH); Region: PhnH; cl01455 395492017337 Phosphonate metabolism protein PhnG; Region: PhnG; cl01454 395492017338 phosphonates metabolism transcriptional regulator PhnF; Region: C_P_lyase_phnF; TIGR02325 395492017339 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395492017340 DNA-binding site [nucleotide binding]; DNA binding site 395492017341 UTRA domain; Region: UTRA; cl01230 395492017342 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 395492017343 catalytic core [active] 395492017344 dihydrodipicolinate reductase; Provisional; Region: PRK00048 395492017345 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492017346 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 395492017347 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 395492017348 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 395492017349 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1. In fact, the...; Region: ABC_MTABC3_MDL1_MDL2; cd03249 395492017350 Walker A/P-loop; other site 395492017351 ATP binding site [chemical binding]; other site 395492017352 Q-loop/lid; other site 395492017353 ABC transporter signature motif; other site 395492017354 Walker B; other site 395492017355 D-loop; other site 395492017356 H-loop/switch region; other site 395492017357 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 395492017358 glucokinase, proteobacterial type; Region: glk; TIGR00749 395492017359 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 395492017360 active site 395492017361 dimer interfaces [polypeptide binding]; other site 395492017362 catalytic residues [active] 395492017363 Penicillin-insensitive murein endopeptidase; Region: Peptidase_M74; cl01538 395492017364 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 395492017365 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 395492017366 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 395492017367 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492017368 dimer interface [polypeptide binding]; other site 395492017369 conserved gate region; other site 395492017370 putative PBP binding loops; other site 395492017371 ABC-ATPase subunit interface; other site 395492017372 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 395492017373 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492017374 dimer interface [polypeptide binding]; other site 395492017375 conserved gate region; other site 395492017376 putative PBP binding loops; other site 395492017377 ABC-ATPase subunit interface; other site 395492017378 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 395492017379 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395492017380 Walker A/P-loop; other site 395492017381 ATP binding site [chemical binding]; other site 395492017382 Q-loop/lid; other site 395492017383 ABC transporter signature motif; other site 395492017384 Walker B; other site 395492017385 D-loop; other site 395492017386 H-loop/switch region; other site 395492017387 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395492017388 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395492017389 Walker A/P-loop; other site 395492017390 ATP binding site [chemical binding]; other site 395492017391 Q-loop/lid; other site 395492017392 ABC transporter signature motif; other site 395492017393 Walker B; other site 395492017394 D-loop; other site 395492017395 H-loop/switch region; other site 395492017396 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 395492017397 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492017398 Nicotinic acid phosphoribosyltransferase [Coenzyme metabolism]; Region: PncB; COG1488 395492017399 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 395492017400 active site 395492017401 KTSC domain; Region: KTSC; pfam13619 395492017402 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 395492017403 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 395492017404 active site 395492017405 Int/Topo IB signature motif; other site 395492017406 Staphylococcal nuclease homologues; Region: SNc; smart00318 395492017407 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 395492017408 Catalytic site; other site 395492017409 Serine recombinase (SR) family, Partitioning (par)-Resolvase subfamily, catalytic domain; Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient...; Region: SR_Res_par; cd03767 395492017410 catalytic residues [active] 395492017411 catalytic nucleophile [active] 395492017412 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 395492017413 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 395492017414 AAA domain; Region: AAA_25; pfam13481 395492017415 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492017416 Walker A motif; other site 395492017417 ATP binding site [chemical binding]; other site 395492017418 Walker B motif; other site 395492017419 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 395492017420 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 395492017421 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 395492017422 ligand binding site [chemical binding]; other site 395492017423 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 395492017424 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 395492017425 Walker A/P-loop; other site 395492017426 ATP binding site [chemical binding]; other site 395492017427 Q-loop/lid; other site 395492017428 ABC transporter signature motif; other site 395492017429 Walker B; other site 395492017430 D-loop; other site 395492017431 H-loop/switch region; other site 395492017432 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 395492017433 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 395492017434 TM-ABC transporter signature motif; other site 395492017435 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 395492017436 TM-ABC transporter signature motif; other site 395492017437 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 395492017438 active site 395492017439 catalytic motif [active] 395492017440 Zn binding site [ion binding]; other site 395492017441 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 395492017442 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 395492017443 intersubunit interface [polypeptide binding]; other site 395492017444 active site 395492017445 catalytic residue [active] 395492017446 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 395492017447 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 395492017448 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 395492017449 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 395492017450 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 395492017451 catalytic motif [active] 395492017452 Catalytic residue [active] 395492017453 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 395492017454 active site 395492017455 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 395492017456 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 395492017457 active site 395492017458 purine riboside binding site [chemical binding]; other site 395492017459 Sulfatase; Region: Sulfatase; cl10460 395492017460 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 395492017461 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 395492017462 TadE-like protein; Region: TadE; cl10688 395492017463 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 395492017464 TadE-like protein; Region: TadE; cl10688 395492017465 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 395492017466 Flp/Fap pilin component; Region: Flp_Fap; cl01585 395492017467 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 395492017468 SAF domain; Region: SAF; cl00555 395492017469 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 395492017470 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 395492017471 BON domain; Region: BON; cl02771 395492017472 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 395492017473 Type IV pili component [Cell motility and secretion]; Region: COG5461; cl02279 395492017474 Pilus biogenesis CpaD protein (pilus_cpaD); Region: Pilus_CpaD; pfam09476 395492017475 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 395492017476 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 395492017477 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 395492017478 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 395492017479 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 395492017480 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 395492017481 ATP binding site [chemical binding]; other site 395492017482 Walker A motif; other site 395492017483 hexamer interface [polypeptide binding]; other site 395492017484 Walker B motif; other site 395492017485 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 395492017486 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 395492017487 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 395492017488 LysE type translocator; Region: LysE; cl00565 395492017489 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 395492017490 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 395492017491 TPR motif; other site 395492017492 binding surface 395492017493 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 395492017494 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 395492017495 interface (dimer of trimers) [polypeptide binding]; other site 395492017496 Substrate-binding/catalytic site; other site 395492017497 Zn-binding sites [ion binding]; other site 395492017498 Helix-turn-helix domains; Region: HTH; cl00088 395492017499 NlpC/P60 family; Region: NLPC_P60; cl11438 395492017500 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492017501 dimer interface [polypeptide binding]; other site 395492017502 conserved gate region; other site 395492017503 putative PBP binding loops; other site 395492017504 ABC-ATPase subunit interface; other site 395492017505 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 395492017506 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492017507 dimer interface [polypeptide binding]; other site 395492017508 conserved gate region; other site 395492017509 putative PBP binding loops; other site 395492017510 ABC-ATPase subunit interface; other site 395492017511 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_6; cd08494 395492017512 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 395492017513 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395492017514 Helix-turn-helix domains; Region: HTH; cl00088 395492017515 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492017516 dimerization interface [polypeptide binding]; other site 395492017517 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of...; Region: nylC_like; cd02252 395492017518 DmpA/OAT superfamily; composed of L-aminopeptidase D-amidase/D-esterase (DmpA), ornithine acetyltransferase (OAT) and similar proteins. DmpA is an aminopeptidase that releases N-terminal D and L amino acids from peptide substrates. This group represents...; Region: DmpA_OAT; cl00603 395492017519 cleavage site 395492017520 hypothetical protein; Provisional; Region: PRK06149 395492017521 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 395492017522 active site 395492017523 substrate binding site [chemical binding]; other site 395492017524 ATP binding site [chemical binding]; other site 395492017525 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 395492017526 inhibitor-cofactor binding pocket; inhibition site 395492017527 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492017528 catalytic residue [active] 395492017529 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 395492017530 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 395492017531 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 395492017532 putative active site [active] 395492017533 putative substrate binding site [chemical binding]; other site 395492017534 putative cosubstrate binding site; other site 395492017535 catalytic site [active] 395492017536 OpgC protein; Region: OpgC_C; cl00792 395492017537 Acyltransferase family; Region: Acyl_transf_3; pfam01757 395492017538 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; cl15381 395492017539 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 395492017540 Chain length determinant protein; Region: Wzz; cl15801 395492017541 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 395492017542 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 395492017543 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 395492017544 inhibitor-cofactor binding pocket; inhibition site 395492017545 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492017546 catalytic residue [active] 395492017547 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 395492017548 trimer interface [polypeptide binding]; other site 395492017549 active site 395492017550 substrate binding site [chemical binding]; other site 395492017551 CoA binding site [chemical binding]; other site 395492017552 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 395492017553 active site 395492017554 Cupin domain; Region: Cupin_2; cl09118 395492017555 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 395492017556 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 395492017557 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 395492017558 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 395492017559 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492017560 NAD(P) binding site [chemical binding]; other site 395492017561 active site 395492017562 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 395492017563 substrate binding site; other site 395492017564 Protein of unknown function (DUF982); Region: DUF982; pfam06169 395492017565 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395492017566 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 395492017567 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 395492017568 S-adenosylmethionine binding site [chemical binding]; other site 395492017569 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 395492017570 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 395492017571 inhibitor-cofactor binding pocket; inhibition site 395492017572 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492017573 catalytic residue [active] 395492017574 Cupin domain; Region: Cupin_2; cl09118 395492017575 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 395492017576 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 395492017577 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 395492017578 RloB-like protein; Region: RloB; pfam13707 395492017579 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492017580 AAA domain; Region: AAA_21; pfam13304 395492017581 Walker A/P-loop; other site 395492017582 ATP binding site [chemical binding]; other site 395492017583 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 395492017584 catalytic residues [active] 395492017585 catalytic nucleophile [active] 395492017586 Presynaptic Site I dimer interface [polypeptide binding]; other site 395492017587 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 395492017588 Synaptic Flat tetramer interface [polypeptide binding]; other site 395492017589 Synaptic Site I dimer interface [polypeptide binding]; other site 395492017590 DNA binding site [nucleotide binding] 395492017591 Recombinase; Region: Recombinase; pfam07508 395492017592 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 395492017593 NUMOD4 motif; Region: NUMOD4; pfam07463 395492017594 HNH endonuclease; Region: HNH_3; pfam13392 395492017595 Helix-turn-helix domains; Region: HTH; cl00088 395492017596 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 395492017597 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 395492017598 active site 395492017599 Int/Topo IB signature motif; other site 395492017600 DNA binding site [nucleotide binding] 395492017601 BA14K-like protein; Region: BA14K; pfam07886 395492017602 Rdx family; Region: Rdx; cl01407 395492017603 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 395492017604 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 395492017605 catalytic triad [active] 395492017606 maltose O-acetyltransferase; Provisional; Region: PRK10092 395492017607 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 395492017608 active site 395492017609 substrate binding site [chemical binding]; other site 395492017610 trimer interface [polypeptide binding]; other site 395492017611 CoA binding site [chemical binding]; other site 395492017612 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 395492017613 CcdB protein; Region: CcdB; cl03380 395492017614 Post-segregation antitoxin CcdA; Region: CcdA; cl02188 395492017615 GTP-binding protein LepA; Provisional; Region: PRK05433 395492017616 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 395492017617 G1 box; other site 395492017618 putative GEF interaction site [polypeptide binding]; other site 395492017619 GTP/Mg2+ binding site [chemical binding]; other site 395492017620 Switch I region; other site 395492017621 G2 box; other site 395492017622 G3 box; other site 395492017623 Switch II region; other site 395492017624 G4 box; other site 395492017625 G5 box; other site 395492017626 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 395492017627 lepA_C: This family represents the C-terminal region of LepA, a GTP-binding protein localized in the cytoplasmic membrane. LepA is ubiquitous in Bacteria and Eukaryota (e.g. Saccharomyces cerevisiae GUF1p), but is missing from Archaea. LepA exhibits...; Region: lepA_C; cd03709 395492017628 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 395492017629 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl15243 395492017630 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 395492017631 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 395492017632 non-specific DNA binding site [nucleotide binding]; other site 395492017633 salt bridge; other site 395492017634 sequence-specific DNA binding site [nucleotide binding]; other site 395492017635 Cupin domain; Region: Cupin_2; cl09118 395492017636 putative acetyltransferase; Provisional; Region: PRK03624 395492017637 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 395492017638 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 395492017639 motif II; other site 395492017640 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 395492017641 RecX family; Region: RecX; cl00936 395492017642 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 395492017643 EamA-like transporter family; Region: EamA; cl01037 395492017644 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 395492017645 apolar tunnel; other site 395492017646 heme binding site [chemical binding]; other site 395492017647 dimerization interface [polypeptide binding]; other site 395492017648 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 395492017649 diiron binding motif [ion binding]; other site 395492017650 Uncharacterized conserved protein [Function unknown]; Region: COG1633 395492017651 CCC1-related protein family; Region: CCC1_like_1; cd02437 395492017652 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 395492017653 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395492017654 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 395492017655 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 395492017656 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 395492017657 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 395492017658 ribosomal protein L20; Region: rpl20; CHL00068 395492017659 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 395492017660 23S rRNA binding site [nucleotide binding]; other site 395492017661 L21 binding site [polypeptide binding]; other site 395492017662 L13 binding site [polypeptide binding]; other site 395492017663 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 395492017664 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 395492017665 Phenylalanyl-tRNA synthetase (PheRS) alpha chain catalytic core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs. This domain is primarily responsible...; Region: PheRS_alpha_core; cd00496 395492017666 dimer interface [polypeptide binding]; other site 395492017667 motif 1; other site 395492017668 active site 395492017669 motif 2; other site 395492017670 motif 3; other site 395492017671 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 395492017672 tRNA-binding-domain-containing prokaryotic phenylalanly tRNA synthetase (PheRS) beta chain. PheRS aminoacylate phenylalanine transfer RNAs (tRNAphe). PheRSs belong structurally to class II aminoacyl tRNA synthetases (aaRSs) but, as they aminoacylate...; Region: tRNA_bind_bactPheRS; cd02796 395492017673 putative tRNA-binding site [nucleotide binding]; other site 395492017674 B3/4 domain; Region: B3_4; cl11458 395492017675 tRNA synthetase B5 domain; Region: B5; cl08394 395492017676 Phenylalanyl-tRNA synthetase (PheRS) beta chain core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure. While class II aaRSs generally aminoacylate the 3'-OH ribose of the appropriate tRNA, PheRS is an...; Region: PheRS_beta_core; cd00769 395492017677 dimer interface [polypeptide binding]; other site 395492017678 motif 1; other site 395492017679 motif 3; other site 395492017680 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 395492017681 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 395492017682 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 395492017683 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 395492017684 active site 395492017685 catalytic tetrad [active] 395492017686 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395492017687 Helix-turn-helix domains; Region: HTH; cl00088 395492017688 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 395492017689 putative effector binding pocket; other site 395492017690 putative dimerization interface [polypeptide binding]; other site 395492017691 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 395492017692 dimerization interface [polypeptide binding]; other site 395492017693 metal binding site [ion binding]; metal-binding site 395492017694 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 395492017695 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395492017696 Coenzyme A binding pocket [chemical binding]; other site 395492017697 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 395492017698 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 395492017699 active site 395492017700 catalytic tetrad [active] 395492017701 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395492017702 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492017703 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 395492017704 GtrA-like protein; Region: GtrA; cl00971 395492017705 glycosyltransferase, TIGR04182 family; Region: glyco_TIGR04182 395492017706 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 395492017707 Ligand binding site; other site 395492017708 Putative Catalytic site; other site 395492017709 DXD motif; other site 395492017710 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 395492017711 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 395492017712 generic binding surface II; other site 395492017713 generic binding surface I; other site 395492017714 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 395492017715 Helix-turn-helix domains; Region: HTH; cl00088 395492017716 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 395492017717 EamA-like transporter family; Region: EamA; cl01037 395492017718 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 395492017719 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 395492017720 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 395492017721 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 395492017722 N-terminal domain interface [polypeptide binding]; other site 395492017723 dimer interface [polypeptide binding]; other site 395492017724 substrate binding pocket (H-site) [chemical binding]; other site 395492017725 Transcriptional regulators [Transcription]; Region: MarR; COG1846 395492017726 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 395492017727 putative deacylase active site [active] 395492017728 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 395492017729 ArsC family; Region: ArsC; pfam03960 395492017730 putative catalytic residues [active] 395492017731 Predicted deacylase [General function prediction only]; Region: COG3608 395492017732 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 395492017733 active site 395492017734 Zn binding site [ion binding]; other site 395492017735 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 395492017736 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 395492017737 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492017738 NAD(P) binding site [chemical binding]; other site 395492017739 active site 395492017740 short chain dehydrogenase; Provisional; Region: PRK06180 395492017741 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 395492017742 NADP binding site [chemical binding]; other site 395492017743 active site 395492017744 steroid binding site; other site 395492017745 Agrobacterium tumefaciens protein Atu4866; Region: Atu4866; pfam11512 395492017746 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395492017747 Helix-turn-helix domains; Region: HTH; cl00088 395492017748 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 395492017749 putative effector binding pocket; other site 395492017750 putative dimerization interface [polypeptide binding]; other site 395492017751 Isochorismatase family; Region: Isochorismatase; pfam00857 395492017752 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 395492017753 catalytic triad [active] 395492017754 conserved cis-peptide bond; other site 395492017755 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 395492017756 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 395492017757 conserved cys residue [active] 395492017758 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395492017759 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395492017760 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 395492017761 substrate binding site [chemical binding]; other site 395492017762 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 395492017763 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395492017764 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 395492017765 active site 395492017766 metal binding site [ion binding]; metal-binding site 395492017767 Helix-turn-helix domains; Region: HTH; cl00088 395492017768 WYL domain; Region: WYL; cl14852 395492017769 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 395492017770 GMP synthase; Reviewed; Region: guaA; PRK00074 395492017771 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 395492017772 AMP/PPi binding site [chemical binding]; other site 395492017773 candidate oxyanion hole; other site 395492017774 catalytic triad [active] 395492017775 potential glutamine specificity residues [chemical binding]; other site 395492017776 The C-terminal domain of GMP synthetase. It contains two subdomains; the ATP pyrophosphatase domain which closes to the N-termial and the dimerization domain at C-terminal end. The ATP-PPase is a twisted, five-stranded parallel beta-sheet sandwiched...; Region: GMP_synthase_C; cd01997 395492017777 ATP Binding subdomain [chemical binding]; other site 395492017778 Ligand Binding sites [chemical binding]; other site 395492017779 Dimerization subdomain; other site 395492017780 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 395492017781 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 395492017782 CoenzymeA binding site [chemical binding]; other site 395492017783 subunit interaction site [polypeptide binding]; other site 395492017784 PHB binding site; other site 395492017785 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; cl12088 395492017786 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3490 395492017787 Imelysin; Region: Peptidase_M75; cl09159 395492017788 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 395492017789 Imelysin; Region: Peptidase_M75; cl09159 395492017790 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 395492017791 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 395492017792 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 395492017793 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395492017794 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 395492017795 putative NAD(P) binding site [chemical binding]; other site 395492017796 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 395492017797 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 395492017798 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 395492017799 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 395492017800 C-terminal domain interface [polypeptide binding]; other site 395492017801 GSH binding site (G-site) [chemical binding]; other site 395492017802 dimer interface [polypeptide binding]; other site 395492017803 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 395492017804 N-terminal domain interface [polypeptide binding]; other site 395492017805 dimer interface [polypeptide binding]; other site 395492017806 substrate binding pocket (H-site) [chemical binding]; other site 395492017807 Bacitracin resistance protein BacA; Region: BacA; cl00858 395492017808 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 395492017809 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 395492017810 putative NAD(P) binding site [chemical binding]; other site 395492017811 active site 395492017812 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 395492017813 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase contains two...; Region: OMP_decarboxylase_like; cd04725 395492017814 active site 395492017815 dimer interface [polypeptide binding]; other site 395492017816 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 395492017817 catalytic core [active] 395492017818 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 395492017819 S-adenosylmethionine binding site [chemical binding]; other site 395492017820 Protein of unknown function DUF72; Region: DUF72; cl00777 395492017821 DNA polymerase III subunit beta; Validated; Region: PRK05643 395492017822 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cd00140 395492017823 putative DNA binding surface [nucleotide binding]; other site 395492017824 dimer interface [polypeptide binding]; other site 395492017825 beta-clamp/clamp loader binding surface; other site 395492017826 beta-clamp/translesion DNA polymerase binding surface; other site 395492017827 Predicted methyltransferases [General function prediction only]; Region: COG0313 395492017828 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 395492017829 Restriction endonuclease; Region: Mrr_cat; cl00516 395492017830 Cupin domain; Region: Cupin_2; cl09118 395492017831 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395492017832 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395492017833 DNA binding site [nucleotide binding] 395492017834 domain linker motif; other site 395492017835 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 395492017836 dimerization interface [polypeptide binding]; other site 395492017837 ligand binding site [chemical binding]; other site 395492017838 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 395492017839 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 395492017840 ligand binding site [chemical binding]; other site 395492017841 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 395492017842 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 395492017843 Walker A/P-loop; other site 395492017844 ATP binding site [chemical binding]; other site 395492017845 Q-loop/lid; other site 395492017846 ABC transporter signature motif; other site 395492017847 Walker B; other site 395492017848 D-loop; other site 395492017849 H-loop/switch region; other site 395492017850 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 395492017851 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 395492017852 TM-ABC transporter signature motif; other site 395492017853 glutathione synthetase; Provisional; Region: PRK05246 395492017854 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 395492017855 ATP-grasp domain; Region: ATP-grasp_4; cl03087 395492017856 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 395492017857 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 395492017858 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 395492017859 Walker A motif; other site 395492017860 ATP binding site [chemical binding]; other site 395492017861 Walker B motif; other site 395492017862 arginine finger; other site 395492017863 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 395492017864 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 395492017865 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 395492017866 dimer interface [polypeptide binding]; other site 395492017867 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492017868 catalytic residue [active] 395492017869 LysE type translocator; Region: LysE; cl00565 395492017870 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 395492017871 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 395492017872 dimerization interface [polypeptide binding]; other site 395492017873 DPS ferroxidase diiron center [ion binding]; other site 395492017874 ion pore; other site 395492017875 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 395492017876 EamA-like transporter family; Region: EamA; cl01037 395492017877 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 395492017878 Helix-turn-helix domains; Region: HTH; cl00088 395492017879 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395492017880 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 395492017881 trimer interface [polypeptide binding]; other site 395492017882 active site 395492017883 Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]; Region: PrfC; COG4108 395492017884 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 395492017885 G1 box; other site 395492017886 putative GEF interaction site [polypeptide binding]; other site 395492017887 GTP/Mg2+ binding site [chemical binding]; other site 395492017888 Switch I region; other site 395492017889 G2 box; other site 395492017890 G3 box; other site 395492017891 Switch II region; other site 395492017892 G4 box; other site 395492017893 G5 box; other site 395492017894 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 395492017895 LysR family transcriptional regulator; Provisional; Region: PRK14997 395492017896 Helix-turn-helix domains; Region: HTH; cl00088 395492017897 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 395492017898 putative effector binding pocket; other site 395492017899 dimerization interface [polypeptide binding]; other site 395492017900 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 395492017901 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 395492017902 C-terminal domain interface [polypeptide binding]; other site 395492017903 GSH binding site (G-site) [chemical binding]; other site 395492017904 dimer interface [polypeptide binding]; other site 395492017905 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 395492017906 dimer interface [polypeptide binding]; other site 395492017907 substrate binding pocket (H-site) [chemical binding]; other site 395492017908 N-terminal domain interface [polypeptide binding]; other site 395492017909 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 395492017910 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 395492017911 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 395492017912 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 395492017913 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395492017914 putative substrate translocation pore; other site 395492017915 Transcriptional regulators [Transcription]; Region: FadR; COG2186 395492017916 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395492017917 DNA-binding site [nucleotide binding]; DNA binding site 395492017918 FCD domain; Region: FCD; cl11656 395492017919 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 395492017920 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 395492017921 putative active site [active] 395492017922 putative dimer interface [polypeptide binding]; other site 395492017923 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 395492017924 Flavoprotein; Region: Flavoprotein; cl08021 395492017925 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 395492017926 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 395492017927 classical (c) SDRs; Region: SDR_c; cd05233 395492017928 NAD(P) binding site [chemical binding]; other site 395492017929 active site 395492017930 LysR family transcriptional regulator; Provisional; Region: PRK14997 395492017931 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 395492017932 putative effector binding pocket; other site 395492017933 dimerization interface [polypeptide binding]; other site 395492017934 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395492017935 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 395492017936 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 395492017937 dimer interface [polypeptide binding]; other site 395492017938 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395492017939 metal binding site [ion binding]; metal-binding site 395492017940 urocanate hydratase; Provisional; Region: PRK05414 395492017941 Protein of unknown function (DUF917); Region: DUF917; pfam06032 395492017942 allantoate amidohydrolase; Reviewed; Region: PRK12893 395492017943 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 395492017944 active site 395492017945 metal binding site [ion binding]; metal-binding site 395492017946 dimer interface [polypeptide binding]; other site 395492017947 allantoinase; Region: allantoinase; TIGR03178 395492017948 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 395492017949 active site 395492017950 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 395492017951 active sites [active] 395492017952 tetramer interface [polypeptide binding]; other site 395492017953 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 395492017954 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 395492017955 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cd05120 395492017956 active site 395492017957 ATP binding site [chemical binding]; other site 395492017958 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 395492017959 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 395492017960 S-adenosylmethionine binding site [chemical binding]; other site 395492017961 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 395492017962 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 395492017963 DNA binding site [nucleotide binding] 395492017964 catalytic residue [active] 395492017965 H2TH interface [polypeptide binding]; other site 395492017966 putative catalytic residues [active] 395492017967 turnover-facilitating residue; other site 395492017968 intercalation triad [nucleotide binding]; other site 395492017969 8OG recognition residue [nucleotide binding]; other site 395492017970 putative reading head residues; other site 395492017971 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 395492017972 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 395492017973 enoyl-CoA hydratase; Provisional; Region: PRK05862 395492017974 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 395492017975 substrate binding site [chemical binding]; other site 395492017976 oxyanion hole (OAH) forming residues; other site 395492017977 trimer interface [polypeptide binding]; other site 395492017978 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 395492017979 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 395492017980 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 395492017981 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395492017982 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 395492017983 classical (c) SDRs; Region: SDR_c; cd05233 395492017984 NAD(P) binding site [chemical binding]; other site 395492017985 active site 395492017986 Transcriptional regulator [Transcription]; Region: IclR; COG1414 395492017987 Bacterial transcriptional regulator; Region: IclR; pfam01614 395492017988 acetyl-CoA acetyltransferase; Provisional; Region: PRK07516 395492017989 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 395492017990 active site 395492017991 acyl-CoA synthetase; Validated; Region: PRK07470 395492017992 AMP-binding enzyme; Region: AMP-binding; cl15778 395492017993 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 395492017994 classical (c) SDRs; Region: SDR_c; cd05233 395492017995 NAD(P) binding site [chemical binding]; other site 395492017996 active site 395492017997 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 395492017998 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 395492017999 active site 395492018000 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 395492018001 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 395492018002 substrate binding site [chemical binding]; other site 395492018003 oxyanion hole (OAH) forming residues; other site 395492018004 trimer interface [polypeptide binding]; other site 395492018005 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 395492018006 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 395492018007 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492018008 enoyl-CoA hydratase; Provisional; Region: PRK05862 395492018009 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 395492018010 substrate binding site [chemical binding]; other site 395492018011 oxyanion hole (OAH) forming residues; other site 395492018012 trimer interface [polypeptide binding]; other site 395492018013 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 395492018014 classical (c) SDRs; Region: SDR_c; cd05233 395492018015 NAD(P) binding site [chemical binding]; other site 395492018016 active site 395492018017 Protein of unknown function (DUF419); Region: DUF419; cl15265 395492018018 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 395492018019 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395492018020 Helix-turn-helix domains; Region: HTH; cl00088 395492018021 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 395492018022 dimerization interface [polypeptide binding]; other site 395492018023 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395492018024 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492018025 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 395492018026 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 395492018027 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492018028 putative PBP binding loops; other site 395492018029 dimer interface [polypeptide binding]; other site 395492018030 ABC-ATPase subunit interface; other site 395492018031 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492018032 dimer interface [polypeptide binding]; other site 395492018033 conserved gate region; other site 395492018034 putative PBP binding loops; other site 395492018035 ABC-ATPase subunit interface; other site 395492018036 Sulfatase; Region: Sulfatase; cl10460 395492018037 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395492018038 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395492018039 Walker A/P-loop; other site 395492018040 ATP binding site [chemical binding]; other site 395492018041 Q-loop/lid; other site 395492018042 ABC transporter signature motif; other site 395492018043 Walker B; other site 395492018044 D-loop; other site 395492018045 H-loop/switch region; other site 395492018046 TOBE domain; Region: TOBE_2; cl01440 395492018047 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 395492018048 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395492018049 Helix-turn-helix domains; Region: HTH; cl00088 395492018050 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492018051 dimerization interface [polypeptide binding]; other site 395492018052 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 395492018053 AMP-binding enzyme; Region: AMP-binding; cl15778 395492018054 AMP-binding enzyme; Region: AMP-binding; cl15778 395492018055 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 395492018056 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 395492018057 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 395492018058 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 395492018059 Walker A/P-loop; other site 395492018060 ATP binding site [chemical binding]; other site 395492018061 Q-loop/lid; other site 395492018062 ABC transporter signature motif; other site 395492018063 Walker B; other site 395492018064 D-loop; other site 395492018065 H-loop/switch region; other site 395492018066 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 395492018067 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 395492018068 Walker A/P-loop; other site 395492018069 ATP binding site [chemical binding]; other site 395492018070 Q-loop/lid; other site 395492018071 ABC transporter signature motif; other site 395492018072 Walker B; other site 395492018073 D-loop; other site 395492018074 H-loop/switch region; other site 395492018075 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 395492018076 TM-ABC transporter signature motif; other site 395492018077 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 395492018078 TM-ABC transporter signature motif; other site 395492018079 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 395492018080 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 395492018081 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 395492018082 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 395492018083 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 395492018084 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 395492018085 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 395492018086 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 395492018087 Flavin Reductases; Region: FlaRed; cl00801 395492018088 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 395492018089 putative dimerization interface [polypeptide binding]; other site 395492018090 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 395492018091 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 395492018092 active site 395492018093 dimer interface [polypeptide binding]; other site 395492018094 non-prolyl cis peptide bond; other site 395492018095 insertion regions; other site 395492018096 Uncharacterized ALDH ( RL0313) with similarity to Tortula ruralis aldehyde dehydrogenase ALDH21A1; Region: ALDH_RL0313; cd07148 395492018097 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395492018098 NAD(P) binding site [chemical binding]; other site 395492018099 catalytic residues [active] 395492018100 putative glutathione S-transferase; Provisional; Region: PRK10357 395492018101 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 395492018102 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 395492018103 N-terminal domain interface [polypeptide binding]; other site 395492018104 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 395492018105 iron-containing alcohol dehydrogenases (Fe-ADH)-like; Region: Fe-ADH; cd08551 395492018106 active site 395492018107 metal binding site [ion binding]; metal-binding site 395492018108 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395492018109 putative substrate translocation pore; other site 395492018110 metabolite-proton symporter; Region: 2A0106; TIGR00883 395492018111 pyruvate carboxylase; Reviewed; Region: PRK12999 395492018112 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 395492018113 ATP-grasp domain; Region: ATP-grasp_4; cl03087 395492018114 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 395492018115 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 395492018116 active site 395492018117 catalytic residues [active] 395492018118 metal binding site [ion binding]; metal-binding site 395492018119 homodimer binding site [polypeptide binding]; other site 395492018120 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 395492018121 carboxyltransferase (CT) interaction site; other site 395492018122 biotinylation site [posttranslational modification]; other site 395492018123 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 395492018124 Fumarase C-terminus; Region: Fumerase_C; cl00795 395492018125 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 395492018126 Helix-turn-helix domains; Region: HTH; cl00088 395492018127 The C-terminal substrate binding domain of LysR-type transcrptional regulator BudR, which is responsible for activation of the expression of the butanediol operon genes; contains the type 2 periplasmic binding fold; Region: PBP2_BudR; cd08451 395492018128 putative dimerization interface [polypeptide binding]; other site 395492018129 putative substrate binding pocket [chemical binding]; other site 395492018130 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 395492018131 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 395492018132 CoA-transferase family III; Region: CoA_transf_3; pfam02515 395492018133 Predicted deacetylase [General function prediction only]; Region: COG3233 395492018134 Helix-turn-helix domain; Region: HTH_18; pfam12833 395492018135 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395492018136 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 395492018137 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395492018138 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395492018139 dimer interface [polypeptide binding]; other site 395492018140 putative CheW interface [polypeptide binding]; other site 395492018141 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 395492018142 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 395492018143 NAD(P) binding site [chemical binding]; other site 395492018144 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 395492018145 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 395492018146 dimer interface [polypeptide binding]; other site 395492018147 active site 395492018148 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 395492018149 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 395492018150 substrate binding site [chemical binding]; other site 395492018151 oxyanion hole (OAH) forming residues; other site 395492018152 trimer interface [polypeptide binding]; other site 395492018153 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492018154 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 395492018155 NAD(P) binding site [chemical binding]; other site 395492018156 active site 395492018157 acetyl-CoA synthetase; Provisional; Region: PRK04319 395492018158 AMP-binding enzyme; Region: AMP-binding; cl15778 395492018159 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 395492018160 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395492018161 putative substrate translocation pore; other site 395492018162 metabolite-proton symporter; Region: 2A0106; TIGR00883 395492018163 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395492018164 Helix-turn-helix domains; Region: HTH; cl00088 395492018165 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395492018166 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 395492018167 dimer interface [polypeptide binding]; other site 395492018168 metal binding site [ion binding]; metal-binding site 395492018169 substrate binding site [chemical binding]; other site 395492018170 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 395492018171 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 395492018172 active site 395492018173 substrate binding site [chemical binding]; other site 395492018174 coenzyme B12 binding site [chemical binding]; other site 395492018175 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 395492018176 B12 binding site [chemical binding]; other site 395492018177 cobalt ligand [ion binding]; other site 395492018178 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 395492018179 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 395492018180 ATP-grasp domain; Region: ATP-grasp_4; cl03087 395492018181 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 395492018182 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 395492018183 carboxyltransferase (CT) interaction site; other site 395492018184 biotinylation site [posttranslational modification]; other site 395492018185 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 395492018186 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 395492018187 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 395492018188 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 395492018189 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 395492018190 non-specific DNA binding site [nucleotide binding]; other site 395492018191 salt bridge; other site 395492018192 sequence-specific DNA binding site [nucleotide binding]; other site 395492018193 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 395492018194 Domain of unknown function (DUF955); Region: DUF955; cl01076 395492018195 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 395492018196 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395492018197 Coenzyme A binding pocket [chemical binding]; other site 395492018198 Helix-turn-helix domains; Region: HTH; cl00088 395492018199 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 395492018200 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 395492018201 dimerization interface [polypeptide binding]; other site 395492018202 substrate binding pocket [chemical binding]; other site 395492018203 NMT1-like family; Region: NMT1_2; cl15260 395492018204 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 395492018205 This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these...; Region: ABC_Pro_Gly_Bertaine; cd03294 395492018206 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 395492018207 Walker A/P-loop; other site 395492018208 ATP binding site [chemical binding]; other site 395492018209 Q-loop/lid; other site 395492018210 ABC transporter signature motif; other site 395492018211 Walker B; other site 395492018212 D-loop; other site 395492018213 H-loop/switch region; other site 395492018214 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492018215 dimer interface [polypeptide binding]; other site 395492018216 conserved gate region; other site 395492018217 ABC-ATPase subunit interface; other site 395492018218 Sulfatase; Region: Sulfatase; cl10460 395492018219 choline-sulfatase; Region: chol_sulfatase; TIGR03417 395492018220 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 395492018221 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 395492018222 non-specific DNA binding site [nucleotide binding]; other site 395492018223 salt bridge; other site 395492018224 sequence-specific DNA binding site [nucleotide binding]; other site 395492018225 Domain of unknown function (DUF955); Region: DUF955; cl01076 395492018226 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395492018227 active site 395492018228 phosphorylation site [posttranslational modification] 395492018229 intermolecular recognition site; other site 395492018230 dimerization interface [polypeptide binding]; other site 395492018231 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 395492018232 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 395492018233 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 395492018234 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 395492018235 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 395492018236 putative active site [active] 395492018237 homotetrameric interface [polypeptide binding]; other site 395492018238 Cre recombinase, C-terminal catalytic domain. Cre-like recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The bacteriophage P1 Cre...; Region: INT_Cre; cd00799 395492018239 DNA binding site [nucleotide binding] 395492018240 dimer interface [polypeptide binding]; other site 395492018241 active site 395492018242 Int/Topo IB signature motif; other site 395492018243 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 395492018244 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 395492018245 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 395492018246 P-loop; other site 395492018247 Magnesium ion binding site [ion binding]; other site 395492018248 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 395492018249 ParB-like nuclease domain; Region: ParBc; cl02129 395492018250 replication initiation protein RepC; Provisional; Region: PRK13824 395492018251 Helix-turn-helix domains; Region: HTH; cl00088 395492018252 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 395492018253 LysR family transcriptional regulator; Provisional; Region: PRK14997 395492018254 Helix-turn-helix domains; Region: HTH; cl00088 395492018255 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 395492018256 putative effector binding pocket; other site 395492018257 dimerization interface [polypeptide binding]; other site 395492018258 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 395492018259 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 395492018260 NADP binding site [chemical binding]; other site 395492018261 dimer interface [polypeptide binding]; other site 395492018262 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 395492018263 classical (c) SDRs; Region: SDR_c; cd05233 395492018264 NAD(P) binding site [chemical binding]; other site 395492018265 active site 395492018266 Transcriptional regulators [Transcription]; Region: FadR; COG2186 395492018267 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395492018268 DNA-binding site [nucleotide binding]; DNA binding site 395492018269 classical (c) SDRs; Region: SDR_c; cd05233 395492018270 NAD(P) binding site [chemical binding]; other site 395492018271 active site 395492018272 NMT1-like family; Region: NMT1_2; cl15260 395492018273 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 395492018274 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 395492018275 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492018276 dimer interface [polypeptide binding]; other site 395492018277 conserved gate region; other site 395492018278 putative PBP binding loops; other site 395492018279 ABC-ATPase subunit interface; other site 395492018280 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 395492018281 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492018282 dimer interface [polypeptide binding]; other site 395492018283 conserved gate region; other site 395492018284 putative PBP binding loops; other site 395492018285 ABC-ATPase subunit interface; other site 395492018286 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 395492018287 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492018288 Walker A/P-loop; other site 395492018289 ATP binding site [chemical binding]; other site 395492018290 Q-loop/lid; other site 395492018291 ABC transporter signature motif; other site 395492018292 Walker B; other site 395492018293 D-loop; other site 395492018294 H-loop/switch region; other site 395492018295 Isochorismatase family; Region: Isochorismatase; pfam00857 395492018296 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 395492018297 catalytic triad [active] 395492018298 conserved cis-peptide bond; other site 395492018299 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 395492018300 dimerization interface [polypeptide binding]; other site 395492018301 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 395492018302 ATP binding site [chemical binding]; other site 395492018303 EamA-like transporter family; Region: EamA; cl01037 395492018304 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 395492018305 EamA-like transporter family; Region: EamA; cl01037 395492018306 Acylphosphatase; Region: Acylphosphatase; cl00551 395492018307 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 395492018308 HypF finger; Region: zf-HYPF; pfam07503 395492018309 HypF finger; Region: zf-HYPF; pfam07503 395492018310 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 395492018311 Helix-turn-helix domains; Region: HTH; cl00088 395492018312 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 395492018313 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492018314 NAD(P) binding site [chemical binding]; other site 395492018315 active site 395492018316 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 395492018317 Prostaglandin dehydrogenases; Region: PGDH; cd05288 395492018318 NAD(P) binding site [chemical binding]; other site 395492018319 substrate binding site [chemical binding]; other site 395492018320 dimer interface [polypeptide binding]; other site 395492018321 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 395492018322 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 395492018323 Protein of unknown function (DUF1419); Region: DUF1419; pfam07215 395492018324 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 395492018325 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 395492018326 ParB-like nuclease domain; Region: ParBc; cl02129 395492018327 plasmid partitioning protein; Provisional; Region: PRK13832 395492018328 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 395492018329 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492018330 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492018331 conjugative transfer relaxase protein TraI; Region: TraI_TIGR; TIGR02760 395492018332 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 395492018333 Protein of unknown function (DUF2493); Region: DUF2493; pfam10686 395492018334 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 395492018335 PemK-like protein; Region: PemK; cl00995 395492018336 Protein of unknown function (DUF736); Region: DUF736; cl02303 395492018337 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 395492018338 IHF dimer interface [polypeptide binding]; other site 395492018339 IHF - DNA interface [nucleotide binding]; other site 395492018340 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 395492018341 N-acetyl-D-glucosamine binding site [chemical binding]; other site 395492018342 catalytic residue [active] 395492018343 TrbC/VIRB2 family; Region: TrbC; cl01583 395492018344 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 395492018345 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 395492018346 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 395492018347 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 395492018348 N-acetyl-D-glucosamine binding site [chemical binding]; other site 395492018349 catalytic residue [active] 395492018350 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 395492018351 VirB8 protein; Region: VirB8; cl01500 395492018352 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 395492018353 VirB7 interaction site; other site 395492018354 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 395492018355 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 395492018356 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 395492018357 Walker A motif; other site 395492018358 hexamer interface [polypeptide binding]; other site 395492018359 ATP binding site [chemical binding]; other site 395492018360 Walker B motif; other site 395492018361 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 395492018362 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492018363 Walker A motif; other site 395492018364 ATP binding site [chemical binding]; other site 395492018365 Walker B motif; other site 395492018366 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 395492018367 Protein of unknown function (DUF2840); Region: DUF2840; pfam11000 395492018368 Staphylococcal nuclease homologues; Region: SNc; smart00318 395492018369 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 395492018370 Catalytic site; other site 395492018371 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 395492018372 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 395492018373 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 395492018374 P-loop; other site 395492018375 Magnesium ion binding site [ion binding]; other site 395492018376 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 395492018377 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 395492018378 active site 395492018379 catalytic site [active] 395492018380 substrate binding site [chemical binding]; other site 395492018381 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 395492018382 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395492018383 Helix-turn-helix domains; Region: HTH; cl00088 395492018384 Winged helix-turn helix; Region: HTH_29; pfam13551 395492018385 Helix-turn-helix domains; Region: HTH; cl00088 395492018386 Integrase core domain; Region: rve; cl01316 395492018387 Helix-turn-helix domains; Region: HTH; cl00088 395492018388 Winged helix-turn helix; Region: HTH_29; pfam13551 395492018389 Helix-turn-helix domains; Region: HTH; cl00088 395492018390 Integrase core domain; Region: rve; cl01316 395492018391 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 395492018392 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR1; cd08267 395492018393 putative NAD(P) binding site [chemical binding]; other site 395492018394 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395492018395 Helix-turn-helix domains; Region: HTH; cl00088 395492018396 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 395492018397 DDE superfamily endonuclease; Region: DDE_4; cl15789 395492018398 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 395492018399 DDE superfamily endonuclease; Region: DDE_4; cl15789 395492018400 Transcriptional regulators [Transcription]; Region: GntR; COG1802 395492018401 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395492018402 DNA-binding site [nucleotide binding]; DNA binding site 395492018403 FCD domain; Region: FCD; cl11656 395492018404 NMT1-like family; Region: NMT1_2; cl15260 395492018405 NMT1/THI5 like; Region: NMT1; pfam09084 395492018406 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 395492018407 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 395492018408 Walker A/P-loop; other site 395492018409 ATP binding site [chemical binding]; other site 395492018410 Q-loop/lid; other site 395492018411 ABC transporter signature motif; other site 395492018412 Walker B; other site 395492018413 D-loop; other site 395492018414 H-loop/switch region; other site 395492018415 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 395492018416 Dehydratase family; Region: ILVD_EDD; cl00340 395492018417 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 395492018418 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395492018419 Helix-turn-helix domains; Region: HTH; cl00088 395492018420 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 395492018421 putative effector binding pocket; other site 395492018422 dimerization interface [polypeptide binding]; other site 395492018423 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 395492018424 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; cl01412 395492018425 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 395492018426 TM-ABC transporter signature motif; other site 395492018427 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 395492018428 TM-ABC transporter signature motif; other site 395492018429 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 395492018430 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 395492018431 Walker A/P-loop; other site 395492018432 ATP binding site [chemical binding]; other site 395492018433 Q-loop/lid; other site 395492018434 ABC transporter signature motif; other site 395492018435 Walker B; other site 395492018436 D-loop; other site 395492018437 H-loop/switch region; other site 395492018438 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 395492018439 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 395492018440 Periplasmic binding component of a family of basic membrane lipoproteins from Borrelia and various putative lipoproteins from other bacteria; Region: PBP1_BmpA_like; cd06304 395492018441 ligand binding site [chemical binding]; other site 395492018442 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 395492018443 homotrimer interaction site [polypeptide binding]; other site 395492018444 putative active site [active] 395492018445 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 395492018446 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492018447 dimer interface [polypeptide binding]; other site 395492018448 conserved gate region; other site 395492018449 putative PBP binding loops; other site 395492018450 ABC-ATPase subunit interface; other site 395492018451 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 395492018452 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492018453 dimer interface [polypeptide binding]; other site 395492018454 conserved gate region; other site 395492018455 putative PBP binding loops; other site 395492018456 ABC-ATPase subunit interface; other site 395492018457 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 395492018458 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 395492018459 Walker A/P-loop; other site 395492018460 ATP binding site [chemical binding]; other site 395492018461 Q-loop/lid; other site 395492018462 ABC transporter signature motif; other site 395492018463 Walker B; other site 395492018464 D-loop; other site 395492018465 H-loop/switch region; other site 395492018466 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395492018467 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 395492018468 substrate binding pocket [chemical binding]; other site 395492018469 membrane-bound complex binding site; other site 395492018470 hinge residues; other site 395492018471 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 395492018472 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 395492018473 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 395492018474 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 395492018475 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 395492018476 shikimate 5-dehydrogenase; Provisional; Region: PRK12548 395492018477 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 395492018478 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 395492018479 shikimate binding site; other site 395492018480 NAD(P) binding site [chemical binding]; other site 395492018481 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 395492018482 active site 1 [active] 395492018483 dimer interface [polypeptide binding]; other site 395492018484 hexamer interface [polypeptide binding]; other site 395492018485 active site 2 [active] 395492018486 FAD dependent oxidoreductase; Region: DAO; pfam01266 395492018487 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492018488 FAD dependent oxidoreductase TIGR03364; Region: HpnW_proposed 395492018489 Transcriptional regulators [Transcription]; Region: GntR; COG1802 395492018490 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395492018491 DNA-binding site [nucleotide binding]; DNA binding site 395492018492 FCD domain; Region: FCD; cl11656 395492018493 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 395492018494 intersubunit interface [polypeptide binding]; other site 395492018495 active site 395492018496 Zn2+ binding site [ion binding]; other site 395492018497 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 395492018498 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395492018499 putative substrate translocation pore; other site 395492018500 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 395492018501 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 395492018502 metal binding site [ion binding]; metal-binding site 395492018503 substrate binding pocket [chemical binding]; other site 395492018504 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 395492018505 classical (c) SDRs; Region: SDR_c; cd05233 395492018506 NAD(P) binding site [chemical binding]; other site 395492018507 active site 395492018508 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 395492018509 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 395492018510 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 395492018511 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 395492018512 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 395492018513 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 395492018514 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 395492018515 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 395492018516 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 395492018517 active site 2 [active] 395492018518 active site 1 [active] 395492018519 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR9; cd08274 395492018520 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 395492018521 putative NAD(P) binding site [chemical binding]; other site 395492018522 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 395492018523 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 395492018524 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 395492018525 classical (c) SDRs; Region: SDR_c; cd05233 395492018526 NAD(P) binding site [chemical binding]; other site 395492018527 active site 395492018528 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 395492018529 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492018530 NAD(P) binding site [chemical binding]; other site 395492018531 active site 395492018532 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 395492018533 Amidase; Region: Amidase; cl11426 395492018534 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 395492018535 AMP-binding enzyme; Region: AMP-binding; cl15778 395492018536 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 395492018537 Catalytic domain of Helicobacter pylori peptidoglycan deacetylase (HpPgdA) and similar proteins; Region: CE4_HpPgdA_like; cd10938 395492018538 active site 395492018539 catalytic site [active] 395492018540 Zn binding site [ion binding]; other site 395492018541 tetramer interface [polypeptide binding]; other site 395492018542 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 395492018543 homotrimer interaction site [polypeptide binding]; other site 395492018544 putative active site [active] 395492018545 Citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CCL cleaves citryl-CoA (CiCoA) to acetyl-CoA (AcCoA) and oxaloacetate (OAA); Region: CCL_ACL-C; cd06100 395492018546 active site 395492018547 oxalacetate binding site [chemical binding]; other site 395492018548 citrylCoA binding site [chemical binding]; other site 395492018549 coenzyme A binding site [chemical binding]; other site 395492018550 catalytic triad [active] 395492018551 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 395492018552 active site 2 [active] 395492018553 active site 1 [active] 395492018554 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 395492018555 Ligand binding site [chemical binding]; other site 395492018556 Electron transfer flavoprotein domain; Region: ETF; pfam01012 395492018557 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 395492018558 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 395492018559 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 395492018560 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395492018561 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 395492018562 glycerol-3-phosphate dehydrogenase, anaerobic, A subunit; Region: glycerol3P_GlpA; TIGR03377 395492018563 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492018564 FAD dependent oxidoreductase; Region: DAO; pfam01266 395492018565 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395492018566 Helix-turn-helix domains; Region: HTH; cl00088 395492018567 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 395492018568 putative FMN binding site [chemical binding]; other site 395492018569 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 395492018570 classical (c) SDRs; Region: SDR_c; cd05233 395492018571 NAD(P) binding site [chemical binding]; other site 395492018572 active site 395492018573 Nitronate monooxygenase; Region: NMO; pfam03060 395492018574 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 395492018575 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 395492018576 FMN binding site [chemical binding]; other site 395492018577 substrate binding site [chemical binding]; other site 395492018578 putative catalytic residue [active] 395492018579 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 395492018580 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492018581 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 395492018582 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 395492018583 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 395492018584 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 395492018585 inhibitor-cofactor binding pocket; inhibition site 395492018586 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492018587 catalytic residue [active] 395492018588 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395492018589 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 395492018590 tetramerization interface [polypeptide binding]; other site 395492018591 NAD(P) binding site [chemical binding]; other site 395492018592 catalytic residues [active] 395492018593 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395492018594 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395492018595 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395492018596 Helix-turn-helix domains; Region: HTH; cl00088 395492018597 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492018598 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 395492018599 active site 395492018600 adenylate kinase; Reviewed; Region: adk; PRK00279 395492018601 Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for...; Region: ADK; cd01428 395492018602 AMP-binding site [chemical binding]; other site 395492018603 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 395492018604 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 395492018605 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 395492018606 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 395492018607 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 395492018608 Ligand binding site [chemical binding]; other site 395492018609 Electron transfer flavoprotein domain; Region: ETF; pfam01012 395492018610 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 395492018611 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395492018612 NAD binding site [chemical binding]; other site 395492018613 catalytic residues [active] 395492018614 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 395492018615 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 395492018616 molybdopterin cofactor binding site [chemical binding]; other site 395492018617 substrate binding site [chemical binding]; other site 395492018618 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 395492018619 molybdopterin cofactor binding site; other site 395492018620 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 395492018621 active site 2 [active] 395492018622 active site 1 [active] 395492018623 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 395492018624 classical (c) SDRs; Region: SDR_c; cd05233 395492018625 NAD(P) binding site [chemical binding]; other site 395492018626 active site 395492018627 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492018628 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 395492018629 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492018630 dimer interface [polypeptide binding]; other site 395492018631 conserved gate region; other site 395492018632 putative PBP binding loops; other site 395492018633 ABC-ATPase subunit interface; other site 395492018634 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492018635 dimer interface [polypeptide binding]; other site 395492018636 conserved gate region; other site 395492018637 putative PBP binding loops; other site 395492018638 ABC-ATPase subunit interface; other site 395492018639 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 395492018640 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492018641 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 395492018642 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492018643 Walker A/P-loop; other site 395492018644 ATP binding site [chemical binding]; other site 395492018645 Q-loop/lid; other site 395492018646 ABC transporter signature motif; other site 395492018647 Walker B; other site 395492018648 D-loop; other site 395492018649 H-loop/switch region; other site 395492018650 TOBE domain; Region: TOBE_2; cl01440 395492018651 enoyl-CoA hydratase; Provisional; Region: PRK06127 395492018652 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 395492018653 substrate binding site [chemical binding]; other site 395492018654 oxyanion hole (OAH) forming residues; other site 395492018655 trimer interface [polypeptide binding]; other site 395492018656 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 395492018657 FAD binding domain; Region: FAD_binding_4; pfam01565 395492018658 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR9; cd08274 395492018659 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 395492018660 putative NAD(P) binding site [chemical binding]; other site 395492018661 choline dehydrogenase; Validated; Region: PRK02106 395492018662 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492018663 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 395492018664 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 395492018665 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395492018666 Walker A/P-loop; other site 395492018667 ATP binding site [chemical binding]; other site 395492018668 Q-loop/lid; other site 395492018669 ABC transporter signature motif; other site 395492018670 Walker B; other site 395492018671 D-loop; other site 395492018672 H-loop/switch region; other site 395492018673 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395492018674 Walker A/P-loop; other site 395492018675 ATP binding site [chemical binding]; other site 395492018676 Q-loop/lid; other site 395492018677 ABC transporter signature motif; other site 395492018678 Walker B; other site 395492018679 D-loop; other site 395492018680 H-loop/switch region; other site 395492018681 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395492018682 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 395492018683 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 395492018684 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492018685 dimer interface [polypeptide binding]; other site 395492018686 conserved gate region; other site 395492018687 putative PBP binding loops; other site 395492018688 ABC-ATPase subunit interface; other site 395492018689 dipeptide transporter permease DppB; Provisional; Region: PRK10914 395492018690 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492018691 dimer interface [polypeptide binding]; other site 395492018692 conserved gate region; other site 395492018693 ABC-ATPase subunit interface; other site 395492018694 Protein of unknown function (DUF982); Region: DUF982; pfam06169 395492018695 DDE superfamily endonuclease; Region: DDE_4; cl15789 395492018696 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 395492018697 DDE superfamily endonuclease; Region: DDE_4; cl15789 395492018698 Transcriptional regulators [Transcription]; Region: GntR; COG1802 395492018699 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395492018700 DNA-binding site [nucleotide binding]; DNA binding site 395492018701 FCD domain; Region: FCD; cl11656 395492018702 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 395492018703 AMP-binding enzyme; Region: AMP-binding; cl15778 395492018704 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 395492018705 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 395492018706 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 395492018707 substrate binding site [chemical binding]; other site 395492018708 oxyanion hole (OAH) forming residues; other site 395492018709 trimer interface [polypeptide binding]; other site 395492018710 Catalytic domain of Helicobacter pylori peptidoglycan deacetylase (HpPgdA) and similar proteins; Region: CE4_HpPgdA_like; cd10938 395492018711 active site 395492018712 catalytic site [active] 395492018713 Zn binding site [ion binding]; other site 395492018714 tetramer interface [polypeptide binding]; other site 395492018715 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 395492018716 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 395492018717 FMN-binding pocket [chemical binding]; other site 395492018718 flavin binding motif; other site 395492018719 phosphate binding motif [ion binding]; other site 395492018720 beta-alpha-beta structure motif; other site 395492018721 NAD binding pocket [chemical binding]; other site 395492018722 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 395492018723 catalytic loop [active] 395492018724 iron binding site [ion binding]; other site 395492018725 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 395492018726 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 395492018727 iron-sulfur cluster [ion binding]; other site 395492018728 [2Fe-2S] cluster binding site [ion binding]; other site 395492018729 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395492018730 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 395492018731 substrate binding pocket [chemical binding]; other site 395492018732 membrane-bound complex binding site; other site 395492018733 hinge residues; other site 395492018734 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 395492018735 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492018736 dimer interface [polypeptide binding]; other site 395492018737 conserved gate region; other site 395492018738 putative PBP binding loops; other site 395492018739 ABC-ATPase subunit interface; other site 395492018740 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 395492018741 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492018742 dimer interface [polypeptide binding]; other site 395492018743 conserved gate region; other site 395492018744 putative PBP binding loops; other site 395492018745 ABC-ATPase subunit interface; other site 395492018746 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 395492018747 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492018748 Walker A/P-loop; other site 395492018749 ATP binding site [chemical binding]; other site 395492018750 Q-loop/lid; other site 395492018751 ABC transporter signature motif; other site 395492018752 Walker B; other site 395492018753 D-loop; other site 395492018754 H-loop/switch region; other site 395492018755 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 395492018756 Amidase; Region: Amidase; cl11426 395492018757 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 395492018758 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 395492018759 hypothetical protein; Provisional; Region: PRK05965 395492018760 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 395492018761 inhibitor-cofactor binding pocket; inhibition site 395492018762 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492018763 catalytic residue [active] 395492018764 Cupin domain; Region: Cupin_2; cl09118 395492018765 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395492018766 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395492018767 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395492018768 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 395492018769 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492018770 NAD(P) binding site [chemical binding]; other site 395492018771 active site 395492018772 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395492018773 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 395492018774 substrate binding pocket [chemical binding]; other site 395492018775 catalytic triad [active] 395492018776 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 395492018777 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492018778 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 395492018779 DctM-like transporters; Region: DctM; pfam06808 395492018780 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 395492018781 cytosine deaminase; Validated; Region: PRK07572 395492018782 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 395492018783 active site 395492018784 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 395492018785 TM-ABC transporter signature motif; other site 395492018786 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 395492018787 TM-ABC transporter signature motif; other site 395492018788 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 395492018789 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 395492018790 Walker A/P-loop; other site 395492018791 ATP binding site [chemical binding]; other site 395492018792 Q-loop/lid; other site 395492018793 ABC transporter signature motif; other site 395492018794 Walker B; other site 395492018795 D-loop; other site 395492018796 H-loop/switch region; other site 395492018797 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 395492018798 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 395492018799 Amidase; Region: Amidase; cl11426 395492018800 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 395492018801 putative ligand binding site [chemical binding]; other site 395492018802 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 395492018803 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 395492018804 putative acyl-acceptor binding pocket; other site 395492018805 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 395492018806 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 395492018807 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 395492018808 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 395492018809 HSP70 interaction site [polypeptide binding]; other site 395492018810 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 395492018811 substrate binding site [polypeptide binding]; other site 395492018812 dimer interface [polypeptide binding]; other site 395492018813 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 395492018814 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 395492018815 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492018816 Domain of unknown function (DUF1932); Region: DUF1932; pfam09130 395492018817 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 395492018818 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 395492018819 putative S-transferase; Provisional; Region: PRK11752 395492018820 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 395492018821 C-terminal domain interface [polypeptide binding]; other site 395492018822 GSH binding site (G-site) [chemical binding]; other site 395492018823 dimer interface [polypeptide binding]; other site 395492018824 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 395492018825 dimer interface [polypeptide binding]; other site 395492018826 N-terminal domain interface [polypeptide binding]; other site 395492018827 active site 395492018828 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 395492018829 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 395492018830 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 395492018831 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395492018832 Walker A/P-loop; other site 395492018833 ATP binding site [chemical binding]; other site 395492018834 Q-loop/lid; other site 395492018835 ABC transporter signature motif; other site 395492018836 Walker B; other site 395492018837 D-loop; other site 395492018838 H-loop/switch region; other site 395492018839 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395492018840 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395492018841 Walker A/P-loop; other site 395492018842 ATP binding site [chemical binding]; other site 395492018843 Q-loop/lid; other site 395492018844 ABC transporter signature motif; other site 395492018845 Walker B; other site 395492018846 D-loop; other site 395492018847 H-loop/switch region; other site 395492018848 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395492018849 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 395492018850 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492018851 dimer interface [polypeptide binding]; other site 395492018852 conserved gate region; other site 395492018853 putative PBP binding loops; other site 395492018854 ABC-ATPase subunit interface; other site 395492018855 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 395492018856 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492018857 dimer interface [polypeptide binding]; other site 395492018858 conserved gate region; other site 395492018859 putative PBP binding loops; other site 395492018860 ABC-ATPase subunit interface; other site 395492018861 proline-specific peptidases, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 395492018862 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395492018863 Autoinducer binding domain; Region: Autoind_bind; pfam03472 395492018864 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 395492018865 DNA binding residues [nucleotide binding] 395492018866 dimerization interface [polypeptide binding]; other site 395492018867 proline-specific peptidases, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 395492018868 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395492018869 Acetamidase/Formamidase family; Region: FmdA_AmdA; cl01023 395492018870 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492018871 AAA domain; Region: AAA_27; pfam13514 395492018872 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 395492018873 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 395492018874 active site 395492018875 metal binding site [ion binding]; metal-binding site 395492018876 DNA binding site [nucleotide binding] 395492018877 Helix-turn-helix domains; Region: HTH; cl00088 395492018878 Winged helix-turn helix; Region: HTH_29; pfam13551 395492018879 Helix-turn-helix domains; Region: HTH; cl00088 395492018880 Integrase core domain; Region: rve; cl01316 395492018881 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395492018882 DNA-binding site [nucleotide binding]; DNA binding site 395492018883 FCD domain; Region: FCD; cl11656 395492018884 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 395492018885 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 395492018886 inhibitor site; inhibition site 395492018887 active site 395492018888 dimer interface [polypeptide binding]; other site 395492018889 catalytic residue [active] 395492018890 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 395492018891 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 395492018892 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 395492018893 substrate binding site [chemical binding]; other site 395492018894 dimer interface [polypeptide binding]; other site 395492018895 ATP binding site [chemical binding]; other site 395492018896 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 395492018897 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395492018898 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395492018899 DNA binding site [nucleotide binding] 395492018900 domain linker motif; other site 395492018901 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 395492018902 dimerization interface [polypeptide binding]; other site 395492018903 ligand binding site [chemical binding]; other site 395492018904 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395492018905 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492018906 ABC-ATPase subunit interface; other site 395492018907 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 395492018908 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492018909 dimer interface [polypeptide binding]; other site 395492018910 conserved gate region; other site 395492018911 putative PBP binding loops; other site 395492018912 ABC-ATPase subunit interface; other site 395492018913 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395492018914 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492018915 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395492018916 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395492018917 Walker A/P-loop; other site 395492018918 ATP binding site [chemical binding]; other site 395492018919 Q-loop/lid; other site 395492018920 ABC transporter signature motif; other site 395492018921 Walker B; other site 395492018922 D-loop; other site 395492018923 H-loop/switch region; other site 395492018924 TOBE domain; Region: TOBE_2; cl01440 395492018925 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 395492018926 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395492018927 Coenzyme A binding pocket [chemical binding]; other site 395492018928 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 395492018929 ThiC-associated domain; Region: ThiC-associated; pfam13667 395492018930 ThiC family; Region: ThiC; cl08031 395492018931 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492018932 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 395492018933 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 395492018934 thiS-thiF/thiG interaction site; other site 395492018935 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 395492018936 ThiS interaction site; other site 395492018937 putative active site [active] 395492018938 tetramer interface [polypeptide binding]; other site 395492018939 GAF domain; Region: GAF; cl15785 395492018940 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 395492018941 homodimer interaction site [polypeptide binding]; other site 395492018942 cofactor binding site; other site 395492018943 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 395492018944 oligomeric interface; other site 395492018945 putative active site [active] 395492018946 homodimer interface [polypeptide binding]; other site 395492018947 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 395492018948 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395492018949 metal binding site [ion binding]; metal-binding site 395492018950 active site 395492018951 I-site; other site 395492018952 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 395492018953 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395492018954 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395492018955 A sub-family of peptidase C39 which contains Cyclolysin and Hemolysin processing peptidases. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine'...; Region: Peptidase_C39_likeA; cd02417 395492018956 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 395492018957 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 395492018958 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492018959 Walker A/P-loop; other site 395492018960 ATP binding site [chemical binding]; other site 395492018961 Q-loop/lid; other site 395492018962 ABC transporter signature motif; other site 395492018963 Walker B; other site 395492018964 D-loop; other site 395492018965 H-loop/switch region; other site 395492018966 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 395492018967 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492018968 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 395492018969 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 395492018970 Domain of unknown function (DUF4082); Region: DUF4082; pfam13313 395492018971 Domain of unknown function (DUF4082); Region: DUF4082; pfam13313 395492018972 Domain of unknown function (DUF4082); Region: DUF4082; pfam13313 395492018973 Domain of unknown function (DUF4082); Region: DUF4082; pfam13313 395492018974 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 395492018975 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492018976 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 395492018977 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 395492018978 Domain of unknown function (DUF4082); Region: DUF4082; pfam13313 395492018979 VCBS repeat; Region: VCBS_repeat; TIGR01965 395492018980 Cadherin repeat-like domain; Region: CA_like; cl15786 395492018981 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 395492018982 Ca2+ binding site [ion binding]; other site 395492018983 VCBS repeat; Region: VCBS_repeat; TIGR01965 395492018984 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 395492018985 Cadherin repeat-like domain; Region: CA_like; cl15786 395492018986 Ca2+ binding site [ion binding]; other site 395492018987 Domain of unknown function (DUF4082); Region: DUF4082; pfam13313 395492018988 VCBS repeat; Region: VCBS_repeat; TIGR01965 395492018989 Cadherin repeat-like domain; Region: CA_like; cl15786 395492018990 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 395492018991 Ca2+ binding site [ion binding]; other site 395492018992 VCBS repeat; Region: VCBS_repeat; TIGR01965 395492018993 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 395492018994 Cadherin repeat-like domain; Region: CA_like; cl15786 395492018995 Ca2+ binding site [ion binding]; other site 395492018996 Domain of unknown function (DUF4082); Region: DUF4082; pfam13313 395492018997 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 395492018998 SLBB domain; Region: SLBB; pfam10531 395492018999 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 395492019000 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 395492019001 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 395492019002 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 395492019003 inhibitor-cofactor binding pocket; inhibition site 395492019004 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492019005 catalytic residue [active] 395492019006 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395492019007 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492019008 NAD(P) binding site [chemical binding]; other site 395492019009 active site 395492019010 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 395492019011 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 395492019012 putative trimer interface [polypeptide binding]; other site 395492019013 putative CoA binding site [chemical binding]; other site 395492019014 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 395492019015 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 395492019016 inhibitor-cofactor binding pocket; inhibition site 395492019017 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395492019018 catalytic residue [active] 395492019019 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395492019020 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492019021 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 395492019022 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 395492019023 putative trimer interface [polypeptide binding]; other site 395492019024 putative active site [active] 395492019025 putative substrate binding site [chemical binding]; other site 395492019026 putative CoA binding site [chemical binding]; other site 395492019027 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 395492019028 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 395492019029 active site 395492019030 phosphorylation site [posttranslational modification] 395492019031 intermolecular recognition site; other site 395492019032 dimerization interface [polypeptide binding]; other site 395492019033 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 395492019034 DNA binding residues [nucleotide binding] 395492019035 dimerization interface [polypeptide binding]; other site 395492019036 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 395492019037 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 395492019038 binding surface 395492019039 TPR motif; other site 395492019040 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 395492019041 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395492019042 NAD binding site [chemical binding]; other site 395492019043 putative substrate binding site 2 [chemical binding]; other site 395492019044 putative substrate binding site 1 [chemical binding]; other site 395492019045 active site 395492019046 Undecaprenyl-phosphate galactose phosphotransferase, WbaP; Region: WbaP_sugtrans; TIGR03022 395492019047 Bacterial sugar transferase; Region: Bac_transf; cl00939 395492019048 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 395492019049 Right handed beta helix region; Region: Beta_helix; pfam13229 395492019050 Right handed beta helix region; Region: Beta_helix; pfam13229 395492019051 O-Antigen ligase; Region: Wzy_C; cl04850 395492019052 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 395492019053 active site 395492019054 This family is most closely related to the GT1 family of glycosyltransferases. ORF704 in E. coli has been shown to be involved in the biosynthesis of O-specific mannose homopolysaccharides; Region: GT1_ecORF704_like; cd03822 395492019055 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395492019056 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395492019057 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 395492019058 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 395492019059 FlgN protein; Region: FlgN; cl09176 395492019060 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 395492019061 GDP-mannose 4,6-dehydratase; Region: gmd; TIGR01472 395492019062 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 395492019063 NADP-binding site; other site 395492019064 homotetramer interface [polypeptide binding]; other site 395492019065 substrate binding site [chemical binding]; other site 395492019066 homodimer interface [polypeptide binding]; other site 395492019067 active site 395492019068 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 395492019069 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 395492019070 NADP binding site [chemical binding]; other site 395492019071 active site 395492019072 putative substrate binding site [chemical binding]; other site 395492019073 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 395492019074 Mechanosensitive ion channel; Region: MS_channel; pfam00924 395492019075 Uncharacterized conserved protein (DUF2277); Region: DUF2277; cl02349 395492019076 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 395492019077 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 395492019078 S-adenosylmethionine binding site [chemical binding]; other site 395492019079 Protein of unknown function (DUF421); Region: DUF421; cl00990 395492019080 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395492019081 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395492019082 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 395492019083 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395492019084 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 395492019085 dimer interface [polypeptide binding]; other site 395492019086 phosphorylation site [posttranslational modification] 395492019087 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 395492019088 ATP binding site [chemical binding]; other site 395492019089 Mg2+ binding site [ion binding]; other site 395492019090 G-X-G motif; other site 395492019091 Transcriptional regulators [Transcription]; Region: FadR; COG2186 395492019092 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395492019093 DNA-binding site [nucleotide binding]; DNA binding site 395492019094 FCD domain; Region: FCD; cl11656 395492019095 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 395492019096 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 395492019097 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395492019098 Walker A/P-loop; other site 395492019099 ATP binding site [chemical binding]; other site 395492019100 Q-loop/lid; other site 395492019101 ABC transporter signature motif; other site 395492019102 Walker B; other site 395492019103 D-loop; other site 395492019104 H-loop/switch region; other site 395492019105 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395492019106 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 395492019107 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395492019108 Walker A/P-loop; other site 395492019109 ATP binding site [chemical binding]; other site 395492019110 Q-loop/lid; other site 395492019111 ABC transporter signature motif; other site 395492019112 Walker B; other site 395492019113 D-loop; other site 395492019114 H-loop/switch region; other site 395492019115 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395492019116 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 395492019117 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 395492019118 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492019119 dimer interface [polypeptide binding]; other site 395492019120 conserved gate region; other site 395492019121 putative PBP binding loops; other site 395492019122 ABC-ATPase subunit interface; other site 395492019123 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 395492019124 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492019125 dimer interface [polypeptide binding]; other site 395492019126 conserved gate region; other site 395492019127 putative PBP binding loops; other site 395492019128 ABC-ATPase subunit interface; other site 395492019129 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 395492019130 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 395492019131 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 395492019132 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 395492019133 inhibitor site; inhibition site 395492019134 active site 395492019135 dimer interface [polypeptide binding]; other site 395492019136 catalytic residue [active] 395492019137 BNR repeat-like domain; Region: BNR_2; pfam13088 395492019138 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 395492019139 Asp-box motif; other site 395492019140 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 395492019141 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 395492019142 putative active site [active] 395492019143 metal binding site [ion binding]; metal-binding site 395492019144 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 395492019145 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 395492019146 OpgC protein; Region: OpgC_C; cl00792 395492019147 Acyltransferase family; Region: Acyl_transf_3; pfam01757 395492019148 colanic acid exporter; Provisional; Region: PRK10459 395492019149 MatE; Region: MatE; cl10513 395492019150 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 395492019151 RES domain; Region: RES; cl02411 395492019152 Uncharacterized conserved protein [Function unknown]; Region: COG5642 395492019153 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 395492019154 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 395492019155 motif 1; other site 395492019156 dimer interface [polypeptide binding]; other site 395492019157 active site 395492019158 motif 2; other site 395492019159 motif 3; other site 395492019160 Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_methylthioribose_binding_like; cd06305 395492019161 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 395492019162 putative ligand binding site [chemical binding]; other site 395492019163 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 395492019164 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 395492019165 Walker A/P-loop; other site 395492019166 ATP binding site [chemical binding]; other site 395492019167 Q-loop/lid; other site 395492019168 ABC transporter signature motif; other site 395492019169 Walker B; other site 395492019170 D-loop; other site 395492019171 H-loop/switch region; other site 395492019172 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 395492019173 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 395492019174 TM-ABC transporter signature motif; other site 395492019175 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 395492019176 TM-ABC transporter signature motif; other site 395492019177 glycerol kinase; Provisional; Region: glpK; PRK00047 395492019178 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 395492019179 N- and C-terminal domain interface [polypeptide binding]; other site 395492019180 active site 395492019181 MgATP binding site [chemical binding]; other site 395492019182 catalytic site [active] 395492019183 metal binding site [ion binding]; metal-binding site 395492019184 glycerol binding site [chemical binding]; other site 395492019185 homotetramer interface [polypeptide binding]; other site 395492019186 homodimer interface [polypeptide binding]; other site 395492019187 FBP binding site [chemical binding]; other site 395492019188 protein IIAGlc interface [polypeptide binding]; other site 395492019189 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395492019190 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492019191 Predicted small integral membrane protein (DUF2160); Region: DUF2160; cl02294 395492019192 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395492019193 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492019194 dimer interface [polypeptide binding]; other site 395492019195 conserved gate region; other site 395492019196 putative PBP binding loops; other site 395492019197 ABC-ATPase subunit interface; other site 395492019198 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492019199 dimer interface [polypeptide binding]; other site 395492019200 conserved gate region; other site 395492019201 putative PBP binding loops; other site 395492019202 ABC-ATPase subunit interface; other site 395492019203 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 395492019204 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 395492019205 Walker A/P-loop; other site 395492019206 ATP binding site [chemical binding]; other site 395492019207 Q-loop/lid; other site 395492019208 ABC transporter signature motif; other site 395492019209 Walker B; other site 395492019210 D-loop; other site 395492019211 H-loop/switch region; other site 395492019212 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 395492019213 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 395492019214 Walker A/P-loop; other site 395492019215 ATP binding site [chemical binding]; other site 395492019216 Q-loop/lid; other site 395492019217 ABC transporter signature motif; other site 395492019218 Walker B; other site 395492019219 D-loop; other site 395492019220 H-loop/switch region; other site 395492019221 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 395492019222 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 395492019223 Helix-turn-helix domains; Region: HTH; cl00088 395492019224 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 395492019225 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 395492019226 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 395492019227 putative dimer interface [polypeptide binding]; other site 395492019228 Protein of unknown function (DUF4242); Region: DUF4242; pfam14026 395492019229 SAM (Sterile alpha motif ); Region: SAM_superfamily; cd09487 395492019230 cyclase homology domain; Region: CHD; cd07302 395492019231 nucleotidyl binding site; other site 395492019232 metal binding site [ion binding]; metal-binding site 395492019233 dimer interface [polypeptide binding]; other site 395492019234 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492019235 Predicted ATPase [General function prediction only]; Region: COG3899 395492019236 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 395492019237 EamA-like transporter family; Region: EamA; cl01037 395492019238 EamA-like transporter family; Region: EamA; cl01037 395492019239 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 395492019240 Helix-turn-helix domains; Region: HTH; cl00088 395492019241 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492019242 dimerization interface [polypeptide binding]; other site 395492019243 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395492019244 Coenzyme A binding pocket [chemical binding]; other site 395492019245 Protein of unknown function (DUF992); Region: DUF992; pfam06186 395492019246 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395492019247 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 395492019248 active site 395492019249 metal binding site [ion binding]; metal-binding site 395492019250 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 395492019251 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 395492019252 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492019253 Walker A/P-loop; other site 395492019254 ATP binding site [chemical binding]; other site 395492019255 Q-loop/lid; other site 395492019256 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 395492019257 ABC transporter signature motif; other site 395492019258 Walker B; other site 395492019259 D-loop; other site 395492019260 ABC transporter; Region: ABC_tran_2; pfam12848 395492019261 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 395492019262 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 395492019263 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 395492019264 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 395492019265 active site 395492019266 catalytic residues [active] 395492019267 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 395492019268 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395492019269 putative substrate translocation pore; other site 395492019270 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 395492019271 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395492019272 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395492019273 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395492019274 mannonate dehydratase; Provisional; Region: PRK03906 395492019275 mannonate dehydratase; Region: uxuA; TIGR00695 395492019276 Transcriptional regulators [Transcription]; Region: GntR; COG1802 395492019277 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395492019278 DNA-binding site [nucleotide binding]; DNA binding site 395492019279 FCD domain; Region: FCD; cl11656 395492019280 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 395492019281 O-Antigen ligase; Region: Wzy_C; cl04850 395492019282 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 395492019283 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 395492019284 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 395492019285 NAD(P) binding site [chemical binding]; other site 395492019286 homodimer interface [polypeptide binding]; other site 395492019287 substrate binding site [chemical binding]; other site 395492019288 active site 395492019289 Bacterial sugar transferase; Region: Bac_transf; cl00939 395492019290 replication initiation protein RepC; Provisional; Region: PRK13824 395492019291 Helix-turn-helix domains; Region: HTH; cl00088 395492019292 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 395492019293 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 395492019294 ParB-like nuclease domain; Region: ParBc; cl02129 395492019295 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 395492019296 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 395492019297 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 395492019298 P-loop; other site 395492019299 Magnesium ion binding site [ion binding]; other site 395492019300 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 395492019301 Magnesium ion binding site [ion binding]; other site 395492019302 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 395492019303 TolB amino-terminal domain; Region: TolB_N; cl00639 395492019304 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 395492019305 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 395492019306 TPR motif; other site 395492019307 binding surface 395492019308 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 395492019309 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 395492019310 non-specific DNA binding site [nucleotide binding]; other site 395492019311 salt bridge; other site 395492019312 sequence-specific DNA binding site [nucleotide binding]; other site 395492019313 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395492019314 putative substrate translocation pore; other site 395492019315 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 395492019316 NMT1-like family; Region: NMT1_2; cl15260 395492019317 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 395492019318 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 395492019319 Walker A/P-loop; other site 395492019320 ATP binding site [chemical binding]; other site 395492019321 Q-loop/lid; other site 395492019322 ABC transporter signature motif; other site 395492019323 Walker B; other site 395492019324 D-loop; other site 395492019325 H-loop/switch region; other site 395492019326 NIL domain; Region: NIL; cl09633 395492019327 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492019328 dimer interface [polypeptide binding]; other site 395492019329 conserved gate region; other site 395492019330 ABC-ATPase subunit interface; other site 395492019331 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 395492019332 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 395492019333 active site 395492019334 non-prolyl cis peptide bond; other site 395492019335 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 395492019336 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 395492019337 active site 395492019338 substrate binding site [chemical binding]; other site 395492019339 coenzyme B12 binding site [chemical binding]; other site 395492019340 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 395492019341 B12 binding site [chemical binding]; other site 395492019342 cobalt ligand [ion binding]; other site 395492019343 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 395492019344 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 395492019345 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395492019346 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492019347 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395492019348 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492019349 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 395492019350 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395492019351 active site 395492019352 metal binding site [ion binding]; metal-binding site 395492019353 allophanate hydrolase; Provisional; Region: PRK08186 395492019354 Amidase; Region: Amidase; cl11426 395492019355 urea carboxylase; Region: urea_carbox; TIGR02712 395492019356 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 395492019357 ATP-grasp domain; Region: ATP-grasp_4; cl03087 395492019358 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 395492019359 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 395492019360 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 395492019361 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 395492019362 carboxyltransferase (CT) interaction site; other site 395492019363 biotinylation site [posttranslational modification]; other site 395492019364 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 395492019365 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 395492019366 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 395492019367 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 395492019368 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 395492019369 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 395492019370 Walker A/P-loop; other site 395492019371 ATP binding site [chemical binding]; other site 395492019372 Q-loop/lid; other site 395492019373 ABC transporter signature motif; other site 395492019374 Walker B; other site 395492019375 D-loop; other site 395492019376 H-loop/switch region; other site 395492019377 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 395492019378 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 395492019379 NMT1-like family; Region: NMT1_2; cl15260 395492019380 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 395492019381 DNA-binding transcriptional regulator MelR; Provisional; Region: PRK10371 395492019382 Cupin domain; Region: Cupin_2; cl09118 395492019383 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395492019384 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492019385 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 395492019386 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 395492019387 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 395492019388 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395492019389 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492019390 dimer interface [polypeptide binding]; other site 395492019391 conserved gate region; other site 395492019392 putative PBP binding loops; other site 395492019393 ABC-ATPase subunit interface; other site 395492019394 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395492019395 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 395492019396 Walker A/P-loop; other site 395492019397 ATP binding site [chemical binding]; other site 395492019398 Q-loop/lid; other site 395492019399 ABC transporter signature motif; other site 395492019400 Walker B; other site 395492019401 D-loop; other site 395492019402 H-loop/switch region; other site 395492019403 TOBE domain; Region: TOBE_2; cl01440 395492019404 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395492019405 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492019406 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 395492019407 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 395492019408 active site 395492019409 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 395492019410 catalytic tetrad [active] 395492019411 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 395492019412 S-adenosylmethionine binding site [chemical binding]; other site 395492019413 Helix-turn-helix domains; Region: HTH; cl00088 395492019414 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 395492019415 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 395492019416 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 395492019417 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 395492019418 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 395492019419 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 395492019420 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 395492019421 ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydC; COG4987 395492019422 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492019423 Walker A/P-loop; other site 395492019424 ATP binding site [chemical binding]; other site 395492019425 Q-loop/lid; other site 395492019426 ABC transporter signature motif; other site 395492019427 Walker B; other site 395492019428 D-loop; other site 395492019429 H-loop/switch region; other site 395492019430 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 395492019431 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 395492019432 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a...; Region: ABCC_MRP_Like; cd03228 395492019433 Walker A/P-loop; other site 395492019434 ATP binding site [chemical binding]; other site 395492019435 Q-loop/lid; other site 395492019436 ABC transporter signature motif; other site 395492019437 Walker B; other site 395492019438 D-loop; other site 395492019439 H-loop/switch region; other site 395492019440 Predicted transcriptional regulators [Transcription]; Region: COG1510 395492019441 Helix-turn-helix domains; Region: HTH; cl00088 395492019442 HupE / UreJ protein; Region: HupE_UreJ; cl01011 395492019443 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 395492019444 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492019445 Tim44-like domain; Region: Tim44; cl09208 395492019446 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 395492019447 putative deacylase active site [active] 395492019448 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 395492019449 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492019450 dimer interface [polypeptide binding]; other site 395492019451 conserved gate region; other site 395492019452 putative PBP binding loops; other site 395492019453 ABC-ATPase subunit interface; other site 395492019454 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492019455 dimer interface [polypeptide binding]; other site 395492019456 conserved gate region; other site 395492019457 putative PBP binding loops; other site 395492019458 ABC-ATPase subunit interface; other site 395492019459 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 395492019460 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492019461 Walker A/P-loop; other site 395492019462 ATP binding site [chemical binding]; other site 395492019463 Q-loop/lid; other site 395492019464 ABC transporter signature motif; other site 395492019465 Walker B; other site 395492019466 D-loop; other site 395492019467 H-loop/switch region; other site 395492019468 TOBE domain; Region: TOBE_2; cl01440 395492019469 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 395492019470 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 395492019471 active site 395492019472 catalytic site [active] 395492019473 metal binding site [ion binding]; metal-binding site 395492019474 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395492019475 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395492019476 domain linker motif; other site 395492019477 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_2; cd06278 395492019478 putative dimerization interface [polypeptide binding]; other site 395492019479 putative ligand binding site [chemical binding]; other site 395492019480 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 395492019481 active site 395492019482 dimerization interface [polypeptide binding]; other site 395492019483 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 395492019484 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 395492019485 binding surface 395492019486 TPR motif; other site 395492019487 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395492019488 metal binding site [ion binding]; metal-binding site 395492019489 active site 395492019490 I-site; other site 395492019491 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 395492019492 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 395492019493 catalytic site [active] 395492019494 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395492019495 DNA-binding site [nucleotide binding]; DNA binding site 395492019496 FCD domain; Region: FCD; cl11656 395492019497 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 395492019498 FAD binding site [chemical binding]; other site 395492019499 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 395492019500 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 395492019501 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395492019502 catalytic residue [active] 395492019503 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395492019504 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 395492019505 Walker A/P-loop; other site 395492019506 ATP binding site [chemical binding]; other site 395492019507 Q-loop/lid; other site 395492019508 ABC transporter signature motif; other site 395492019509 Walker B; other site 395492019510 D-loop; other site 395492019511 H-loop/switch region; other site 395492019512 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 395492019513 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395492019514 Walker A/P-loop; other site 395492019515 ATP binding site [chemical binding]; other site 395492019516 Q-loop/lid; other site 395492019517 ABC transporter signature motif; other site 395492019518 Walker B; other site 395492019519 D-loop; other site 395492019520 H-loop/switch region; other site 395492019521 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 395492019522 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492019523 dimer interface [polypeptide binding]; other site 395492019524 conserved gate region; other site 395492019525 putative PBP binding loops; other site 395492019526 ABC-ATPase subunit interface; other site 395492019527 nickel transporter permease NikB; Provisional; Region: PRK10352 395492019528 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492019529 dimer interface [polypeptide binding]; other site 395492019530 conserved gate region; other site 395492019531 putative PBP binding loops; other site 395492019532 ABC-ATPase subunit interface; other site 395492019533 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 395492019534 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_13; cd08517 395492019535 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 395492019536 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 395492019537 active site 395492019538 non-prolyl cis peptide bond; other site 395492019539 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 395492019540 TM-ABC transporter signature motif; other site 395492019541 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 395492019542 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 395492019543 Walker A/P-loop; other site 395492019544 ATP binding site [chemical binding]; other site 395492019545 Q-loop/lid; other site 395492019546 ABC transporter signature motif; other site 395492019547 Walker B; other site 395492019548 D-loop; other site 395492019549 H-loop/switch region; other site 395492019550 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492019551 Walker A/P-loop; other site 395492019552 ATP binding site [chemical binding]; other site 395492019553 Q-loop/lid; other site 395492019554 ABC transporter signature motif; other site 395492019555 Walker B; other site 395492019556 D-loop; other site 395492019557 H-loop/switch region; other site 395492019558 Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_methylthioribose_binding_like; cd06305 395492019559 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 395492019560 putative ligand binding site [chemical binding]; other site 395492019561 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 395492019562 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 395492019563 active site 395492019564 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 395492019565 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 395492019566 Flavin binding site [chemical binding]; other site 395492019567 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 395492019568 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 395492019569 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395492019570 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395492019571 DNA binding site [nucleotide binding] 395492019572 domain linker motif; other site 395492019573 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 395492019574 ligand binding site [chemical binding]; other site 395492019575 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395492019576 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395492019577 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 395492019578 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 395492019579 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395492019580 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492019581 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 395492019582 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492019583 dimer interface [polypeptide binding]; other site 395492019584 conserved gate region; other site 395492019585 putative PBP binding loops; other site 395492019586 ABC-ATPase subunit interface; other site 395492019587 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395492019588 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492019589 dimer interface [polypeptide binding]; other site 395492019590 conserved gate region; other site 395492019591 ABC-ATPase subunit interface; other site 395492019592 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395492019593 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492019594 Walker A/P-loop; other site 395492019595 ATP binding site [chemical binding]; other site 395492019596 Q-loop/lid; other site 395492019597 ABC transporter signature motif; other site 395492019598 Walker B; other site 395492019599 D-loop; other site 395492019600 H-loop/switch region; other site 395492019601 TOBE domain; Region: TOBE_2; cl01440 395492019602 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 395492019603 active site 395492019604 dimerization interface [polypeptide binding]; other site 395492019605 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 395492019606 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395492019607 Walker A/P-loop; other site 395492019608 ATP binding site [chemical binding]; other site 395492019609 Q-loop/lid; other site 395492019610 ABC transporter signature motif; other site 395492019611 Walker B; other site 395492019612 D-loop; other site 395492019613 H-loop/switch region; other site 395492019614 TOBE domain; Region: TOBE_2; cl01440 395492019615 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 395492019616 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492019617 dimer interface [polypeptide binding]; other site 395492019618 conserved gate region; other site 395492019619 putative PBP binding loops; other site 395492019620 ABC-ATPase subunit interface; other site 395492019621 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395492019622 dimer interface [polypeptide binding]; other site 395492019623 conserved gate region; other site 395492019624 putative PBP binding loops; other site 395492019625 ABC-ATPase subunit interface; other site 395492019626 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 395492019627 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 395492019628 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 395492019629 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 395492019630 S-adenosylmethionine binding site [chemical binding]; other site