-- dump date 20120504_160031 -- class Genbank::misc_feature -- table misc_feature_note -- id note 859656000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 859656000002 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 859656000003 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 859656000004 Walker A motif; other site 859656000005 ATP binding site [chemical binding]; other site 859656000006 Walker B motif; other site 859656000007 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 859656000008 arginine finger; other site 859656000009 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 859656000010 DnaA box-binding interface [nucleotide binding]; other site 859656000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 859656000012 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 859656000013 putative DNA binding surface [nucleotide binding]; other site 859656000014 dimer interface [polypeptide binding]; other site 859656000015 beta-clamp/clamp loader binding surface; other site 859656000016 beta-clamp/translesion DNA polymerase binding surface; other site 859656000017 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 859656000018 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 859656000019 ATP binding site [chemical binding]; other site 859656000020 Mg2+ binding site [ion binding]; other site 859656000021 G-X-G motif; other site 859656000022 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 859656000023 anchoring element; other site 859656000024 dimer interface [polypeptide binding]; other site 859656000025 ATP binding site [chemical binding]; other site 859656000026 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 859656000027 active site 859656000028 putative metal-binding site [ion binding]; other site 859656000029 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 859656000030 Helix-turn-helix domains; Region: HTH; cl00088 859656000031 potential frameshift: common BLAST hit: gi|17548779|ref|NP_522119.1| ISRSO16-transposase ORFB protein 859656000032 HTH-like domain; Region: HTH_21; pfam13276 859656000033 Integrase core domain; Region: rve; cl01316 859656000034 Integrase core domain; Region: rve_3; cl15866 859656000035 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 859656000036 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 859656000037 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 859656000038 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 859656000039 cofactor binding site; other site 859656000040 DNA binding site [nucleotide binding] 859656000041 substrate interaction site [chemical binding]; other site 859656000042 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 859656000043 AAA-like domain; Region: AAA_10; pfam12846 859656000044 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 859656000045 DNA-binding interface [nucleotide binding]; DNA binding site 859656000046 putative transposase OrfB; Reviewed; Region: PHA02517 859656000047 HTH-like domain; Region: HTH_21; pfam13276 859656000048 Integrase core domain; Region: rve; cl01316 859656000049 Integrase core domain; Region: rve_3; cl15866 859656000050 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 859656000051 Domain of unknown function (DUF1795); Region: DUF1795; cl02256 859656000052 PAAR motif; Region: PAAR_motif; cl15808 859656000053 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 859656000054 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in mouse RS21-C6 protein and its homologs; Region: NTP-PPase_RS21-C6_like; cd11537 859656000055 homodimer interface [polypeptide binding]; other site 859656000056 chemical substrate binding site [chemical binding]; other site 859656000057 oligomer interface [polypeptide binding]; other site 859656000058 metal binding site [ion binding]; metal-binding site 859656000059 Restriction endonuclease; Region: Mrr_cat; cl00516 859656000060 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 859656000061 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 859656000062 Transposase, Mutator family; Region: Transposase_mut; pfam00872 859656000063 Evidence 2b : Function of strongly homologous gene; Product type e : enzyme 859656000064 Restriction endonuclease; Region: Mrr_cat; cl00516 859656000065 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 859656000066 Evidence 4 : Homologs of previously reported genes of unknown function 859656000067 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 859656000068 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 859656000069 dimer interface [polypeptide binding]; other site 859656000070 putative CheW interface [polypeptide binding]; other site 859656000071 Transcriptional regulator [Transcription]; Region: IclR; COG1414 859656000072 Helix-turn-helix domains; Region: HTH; cl00088 859656000073 Bacterial transcriptional regulator; Region: IclR; pfam01614 859656000074 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 859656000075 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 859656000076 substrate binding pocket [chemical binding]; other site 859656000077 membrane-bound complex binding site; other site 859656000078 hinge residues; other site 859656000079 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 859656000080 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 859656000081 dimer interface [polypeptide binding]; other site 859656000082 conserved gate region; other site 859656000083 putative PBP binding loops; other site 859656000084 ABC-ATPase subunit interface; other site 859656000085 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 859656000086 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 859656000087 Walker A/P-loop; other site 859656000088 ATP binding site [chemical binding]; other site 859656000089 Q-loop/lid; other site 859656000090 ABC transporter signature motif; other site 859656000091 Walker B; other site 859656000092 D-loop; other site 859656000093 H-loop/switch region; other site 859656000094 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656000095 FAD dependent oxidoreductase; Region: DAO; pfam01266 859656000096 Predicted integral membrane protein (DUF2269); Region: DUF2269; cl02335 859656000097 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 859656000098 NADH(P)-binding; Region: NAD_binding_10; pfam13460 859656000099 putative NAD(P) binding site [chemical binding]; other site 859656000100 active site 859656000101 DoxX-like family; Region: DoxX_3; pfam13781 859656000102 Predicted transcriptional regulators [Transcription]; Region: COG1510 859656000103 Helix-turn-helix domains; Region: HTH; cl00088 859656000104 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 859656000105 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4705 859656000106 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 859656000107 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 859656000108 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 859656000109 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 859656000110 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 859656000111 active site 859656000112 phosphorylation site [posttranslational modification] 859656000113 intermolecular recognition site; other site 859656000114 dimerization interface [polypeptide binding]; other site 859656000115 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 859656000116 DNA binding site [nucleotide binding] 859656000117 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 859656000118 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 859656000119 dimer interface [polypeptide binding]; other site 859656000120 phosphorylation site [posttranslational modification] 859656000121 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 859656000122 ATP binding site [chemical binding]; other site 859656000123 Mg2+ binding site [ion binding]; other site 859656000124 G-X-G motif; other site 859656000125 CAAX protease self-immunity; Region: Abi; cl00558 859656000126 hypothetical protein; Validated; Region: PRK09169 859656000127 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 859656000128 metal binding triad [ion binding]; metal-binding site 859656000129 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 859656000130 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 859656000131 putative substrate translocation pore; other site 859656000132 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 859656000133 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 859656000134 heme-binding site [chemical binding]; other site 859656000135 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 859656000136 FAD binding pocket [chemical binding]; other site 859656000137 FAD binding motif [chemical binding]; other site 859656000138 phosphate binding motif [ion binding]; other site 859656000139 beta-alpha-beta structure motif; other site 859656000140 NAD binding pocket [chemical binding]; other site 859656000141 Heme binding pocket [chemical binding]; other site 859656000142 Helix-turn-helix domains; Region: HTH; cl00088 859656000143 Rrf2 family protein; Region: rrf2_super; TIGR00738 859656000144 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 859656000145 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 859656000146 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 859656000147 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 859656000148 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 859656000149 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 859656000150 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 859656000151 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 859656000152 ATP binding site [chemical binding]; other site 859656000153 Mg2+ binding site [ion binding]; other site 859656000154 G-X-G motif; other site 859656000155 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 859656000156 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 859656000157 active site 859656000158 phosphorylation site [posttranslational modification] 859656000159 intermolecular recognition site; other site 859656000160 dimerization interface [polypeptide binding]; other site 859656000161 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 859656000162 DNA binding site [nucleotide binding] 859656000163 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 859656000164 NMT1-like family; Region: NMT1_2; cl15260 859656000165 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 859656000166 eyelet of channel; other site 859656000167 trimer interface [polypeptide binding]; other site 859656000168 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : enzyme 859656000169 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : enzyme 859656000170 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 859656000171 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 859656000172 active site 859656000173 phosphorylation site [posttranslational modification] 859656000174 intermolecular recognition site; other site 859656000175 dimerization interface [polypeptide binding]; other site 859656000176 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 859656000177 DNA binding residues [nucleotide binding] 859656000178 dimerization interface [polypeptide binding]; other site 859656000179 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 859656000180 active site 859656000181 phosphorylation site [posttranslational modification] 859656000182 intermolecular recognition site; other site 859656000183 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 859656000184 NMT1-like family; Region: NMT1_2; cl15260 859656000185 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 859656000186 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 859656000187 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 859656000188 Ligand Binding Site [chemical binding]; other site 859656000189 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 859656000190 GAF domain; Region: GAF; cl15785 859656000191 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 859656000192 dimer interface [polypeptide binding]; other site 859656000193 phosphorylation site [posttranslational modification] 859656000194 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 859656000195 ATP binding site [chemical binding]; other site 859656000196 Mg2+ binding site [ion binding]; other site 859656000197 G-X-G motif; other site 859656000198 K+-transporting ATPase, c chain; Region: KdpC; cl00944 859656000199 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 859656000200 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 859656000201 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 859656000202 Potassium-transporting ATPase A subunit; Region: KdpA; cl00903 859656000203 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 859656000204 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 859656000205 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 859656000206 DNA binding residues [nucleotide binding] 859656000207 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 859656000208 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 859656000209 Walker A/P-loop; other site 859656000210 ATP binding site [chemical binding]; other site 859656000211 Q-loop/lid; other site 859656000212 ABC transporter signature motif; other site 859656000213 Walker B; other site 859656000214 D-loop; other site 859656000215 H-loop/switch region; other site 859656000216 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; cl15413 859656000217 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 859656000218 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 859656000219 dimer interface [polypeptide binding]; other site 859656000220 conserved gate region; other site 859656000221 putative PBP binding loops; other site 859656000222 ABC-ATPase subunit interface; other site 859656000223 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 859656000224 dimer interface [polypeptide binding]; other site 859656000225 conserved gate region; other site 859656000226 putative PBP binding loops; other site 859656000227 ABC-ATPase subunit interface; other site 859656000228 Acylphosphatase; Region: Acylphosphatase; cl00551 859656000229 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 859656000230 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 859656000231 CoA-transferase family III; Region: CoA_transf_3; pfam02515 859656000232 Septum formation topological specificity factor MinE; Region: MinE; cl00538 859656000233 cell division inhibitor MinD; Provisional; Region: PRK10818 859656000234 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 859656000235 Switch I; other site 859656000236 Switch II; other site 859656000237 septum formation inhibitor; Reviewed; Region: PRK01973 859656000238 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 859656000239 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 859656000240 Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; PubMedId : 2172762, 3005231; Product type e : enzyme 859656000241 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 859656000242 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656000243 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 859656000244 Uncharacterized protein conserved in bacteria (DUF2272); Region: DUF2272; cl01776 859656000245 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 859656000246 IHF dimer interface [polypeptide binding]; other site 859656000247 IHF - DNA interface [nucleotide binding]; other site 859656000248 SET domain; Region: SET; cl02566 859656000249 Cysteine-rich motif following a subset of SET domains; Region: PostSET; smart00508 859656000250 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 859656000251 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 859656000252 dimer interface [polypeptide binding]; other site 859656000253 phosphorylation site [posttranslational modification] 859656000254 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 859656000255 ATP binding site [chemical binding]; other site 859656000256 Mg2+ binding site [ion binding]; other site 859656000257 G-X-G motif; other site 859656000258 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 859656000259 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 859656000260 active site 859656000261 phosphorylation site [posttranslational modification] 859656000262 intermolecular recognition site; other site 859656000263 dimerization interface [polypeptide binding]; other site 859656000264 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 859656000265 DNA binding site [nucleotide binding] 859656000266 Protein of unknown function (DUF3717); Region: DUF3717; pfam12512 859656000267 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 859656000268 aromatic arch; other site 859656000269 DCoH dimer interaction site [polypeptide binding]; other site 859656000270 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 859656000271 DCoH tetramer interaction site [polypeptide binding]; other site 859656000272 substrate binding site [chemical binding]; other site 859656000273 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 859656000274 cofactor binding site; other site 859656000275 metal binding site [ion binding]; metal-binding site 859656000276 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 859656000277 Helix-turn-helix domains; Region: HTH; cl00088 859656000278 AsnC family; Region: AsnC_trans_reg; pfam01037 859656000279 YhhN-like protein; Region: YhhN; cl01505 859656000280 ornithine cyclodeaminase; Validated; Region: PRK07340 859656000281 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656000282 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; cl01155 859656000283 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; cl00207 859656000284 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 859656000285 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 859656000286 metal-binding site [ion binding] 859656000287 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 859656000288 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 859656000289 motif II; other site 859656000290 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 859656000291 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 859656000292 DNA binding residues [nucleotide binding] 859656000293 dimer interface [polypeptide binding]; other site 859656000294 copper binding site [ion binding]; other site 859656000295 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 859656000296 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 859656000297 choline dehydrogenase; Validated; Region: PRK02106 859656000298 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 859656000299 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 859656000300 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 859656000301 Walker A/P-loop; other site 859656000302 ATP binding site [chemical binding]; other site 859656000303 Q-loop/lid; other site 859656000304 ABC transporter signature motif; other site 859656000305 Walker B; other site 859656000306 D-loop; other site 859656000307 H-loop/switch region; other site 859656000308 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 859656000309 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 859656000310 Walker A/P-loop; other site 859656000311 ATP binding site [chemical binding]; other site 859656000312 Q-loop/lid; other site 859656000313 ABC transporter signature motif; other site 859656000314 Walker B; other site 859656000315 D-loop; other site 859656000316 H-loop/switch region; other site 859656000317 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 859656000318 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 859656000319 putative ligand binding site [chemical binding]; other site 859656000320 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 859656000321 TM-ABC transporter signature motif; other site 859656000322 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 859656000323 TM-ABC transporter signature motif; other site 859656000324 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 859656000325 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 859656000326 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 859656000327 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : enzyme 859656000328 atypical (a) SDRs, subgroup 3; Region: SDR_a3; cd05229 859656000329 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 859656000330 putative NAD(P) binding site [chemical binding]; other site 859656000331 putative active site [active] 859656000332 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859656000333 Helix-turn-helix domains; Region: HTH; cl00088 859656000334 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 859656000335 dimerization interface [polypeptide binding]; other site 859656000336 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 859656000337 LysR family transcriptional regulator; Provisional; Region: PRK14997 859656000338 Helix-turn-helix domains; Region: HTH; cl00088 859656000339 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 859656000340 putative effector binding pocket; other site 859656000341 putative dimerization interface [polypeptide binding]; other site 859656000342 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656000343 NAD(P) binding site [chemical binding]; other site 859656000344 active site 859656000345 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 859656000346 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 859656000347 putative ligand binding site [chemical binding]; other site 859656000348 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 859656000349 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656000350 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 859656000351 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 859656000352 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 859656000353 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 859656000354 P-loop; other site 859656000355 Magnesium ion binding site [ion binding]; other site 859656000356 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 859656000357 Magnesium ion binding site [ion binding]; other site 859656000358 ParB-like partition proteins; Region: parB_part; TIGR00180 859656000359 ParB-like nuclease domain; Region: ParBc; cl02129 859656000360 ATP synthase A chain; Region: ATP-synt_A; cl00413 859656000361 ATP synthase subunit C; Region: ATP-synt_C; cl00466 859656000362 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 859656000363 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 859656000364 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 859656000365 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 859656000366 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 859656000367 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 859656000368 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 859656000369 beta subunit interaction interface [polypeptide binding]; other site 859656000370 Walker A motif; other site 859656000371 ATP binding site [chemical binding]; other site 859656000372 Walker B motif; other site 859656000373 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 859656000374 ATP synthase; Region: ATP-synt; cl00365 859656000375 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 859656000376 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 859656000377 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 859656000378 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 859656000379 alpha subunit interaction interface [polypeptide binding]; other site 859656000380 Walker A motif; other site 859656000381 ATP binding site [chemical binding]; other site 859656000382 Walker B motif; other site 859656000383 inhibitor binding site; inhibition site 859656000384 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 859656000385 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 859656000386 FecR protein; Region: FecR; pfam04773 859656000387 Topoisomerase II-associated protein PAT1; Region: PAT1; pfam09770 859656000388 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 859656000389 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656000390 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 859656000391 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 859656000392 Protein of unknown function (DUF3562); Region: DUF3562; pfam12085 859656000393 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 859656000394 glutathionine S-transferase; Provisional; Region: PRK10542 859656000395 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 859656000396 C-terminal domain interface [polypeptide binding]; other site 859656000397 GSH binding site (G-site) [chemical binding]; other site 859656000398 dimer interface [polypeptide binding]; other site 859656000399 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 859656000400 dimer interface [polypeptide binding]; other site 859656000401 N-terminal domain interface [polypeptide binding]; other site 859656000402 substrate binding pocket (H-site) [chemical binding]; other site 859656000403 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859656000404 Helix-turn-helix domains; Region: HTH; cl00088 859656000405 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 859656000406 dimerization interface [polypeptide binding]; other site 859656000407 Cache domain; Region: Cache_1; pfam02743 859656000408 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 859656000409 dimerization interface [polypeptide binding]; other site 859656000410 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 859656000411 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 859656000412 dimer interface [polypeptide binding]; other site 859656000413 putative CheW interface [polypeptide binding]; other site 859656000414 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 859656000415 Cupin domain; Region: Cupin_2; cl09118 859656000416 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 859656000417 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 859656000418 substrate binding site [chemical binding]; other site 859656000419 active site 859656000420 primosome assembly protein PriA; Validated; Region: PRK05580 859656000421 primosome assembly protein PriA; Validated; Region: PRK05580 859656000422 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 859656000423 ATP binding site [chemical binding]; other site 859656000424 putative Mg++ binding site [ion binding]; other site 859656000425 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 859656000426 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 859656000427 Proline dehydrogenase; Region: Pro_dh; cl03282 859656000428 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 859656000429 Glutamate binding site [chemical binding]; other site 859656000430 NAD binding site [chemical binding]; other site 859656000431 catalytic residues [active] 859656000432 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 859656000433 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 859656000434 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 859656000435 dimerization interface [polypeptide binding]; other site 859656000436 ligand binding site [chemical binding]; other site 859656000437 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 859656000438 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 859656000439 OPT oligopeptide transporter protein; Region: OPT; cl14607 859656000440 Ferritin-like; Region: Ferritin-like; pfam12902 859656000441 Protein of unknown function (DUF692); Region: DUF692; cl01263 859656000442 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 859656000443 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 859656000444 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 859656000445 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 859656000446 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 859656000447 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 859656000448 PAAR motif; Region: PAAR_motif; cl15808 859656000449 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 859656000450 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 859656000451 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 859656000452 glycine dehydrogenase; Provisional; Region: PRK05367 859656000453 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 859656000454 tetramer interface [polypeptide binding]; other site 859656000455 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859656000456 catalytic residue [active] 859656000457 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 859656000458 tetramer interface [polypeptide binding]; other site 859656000459 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859656000460 catalytic residue [active] 859656000461 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 859656000462 lipoyl attachment site [posttranslational modification]; other site 859656000463 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 859656000464 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 859656000465 OpgC protein; Region: OpgC_C; cl00792 859656000466 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 859656000467 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 859656000468 Family description; Region: UvrD_C_2; cl15862 859656000469 Fucose-binding lectin II (PA-IIL); Region: PA-IIL; pfam07472 859656000470 Inclusion body protein; Region: PixA; pfam12306 859656000471 Inclusion body protein; Region: PixA; pfam12306 859656000472 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 859656000473 Autoinducer binding domain; Region: Autoind_bind; pfam03472 859656000474 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 859656000475 DNA binding residues [nucleotide binding] 859656000476 dimerization interface [polypeptide binding]; other site 859656000477 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 859656000478 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 859656000479 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 859656000480 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 859656000481 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 859656000482 FeS/SAM binding site; other site 859656000483 HemN C-terminal domain; Region: HemN_C; pfam06969 859656000484 pyruvate kinase; Provisional; Region: PRK06247 859656000485 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 859656000486 domain interfaces; other site 859656000487 active site 859656000488 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 859656000489 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 859656000490 MOFRL family; Region: MOFRL; pfam05161 859656000491 tartronate semialdehyde reductase; Provisional; Region: PRK15059 859656000492 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656000493 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 859656000494 glyoxylate carboligase; Provisional; Region: PRK11269 859656000495 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 859656000496 PYR/PP interface [polypeptide binding]; other site 859656000497 dimer interface [polypeptide binding]; other site 859656000498 TPP binding site [chemical binding]; other site 859656000499 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 859656000500 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 859656000501 TPP-binding site [chemical binding]; other site 859656000502 Helix-turn-helix domains; Region: HTH; cl00088 859656000503 transcriptional activator TtdR; Provisional; Region: PRK09801 859656000504 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 859656000505 putative effector binding pocket; other site 859656000506 dimerization interface [polypeptide binding]; other site 859656000507 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; cl15381 859656000508 Uncharacterized conserved protein [Function unknown]; Region: COG1739 859656000509 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 859656000510 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 859656000511 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 859656000512 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 859656000513 DNA-binding site [nucleotide binding]; DNA binding site 859656000514 FCD domain; Region: FCD; cl11656 859656000515 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 859656000516 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 859656000517 allantoicase; Provisional; Region: PRK13257 859656000518 Allantoicase repeat; Region: Allantoicase; pfam03561 859656000519 Allantoicase repeat; Region: Allantoicase; pfam03561 859656000520 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; cl01250 859656000521 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 859656000522 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08651 859656000523 M20 Zn-peptidases include exopeptidases; Region: M20_like; cd02697 859656000524 putative metal binding site [ion binding]; other site 859656000525 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 859656000526 ArsC family; Region: ArsC; pfam03960 859656000527 catalytic residues [active] 859656000528 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 859656000529 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 859656000530 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 859656000531 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 859656000532 Predicted methyltransferases [General function prediction only]; Region: COG0313 859656000533 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 859656000534 Restriction endonuclease; Region: Mrr_cat; cl00516 859656000535 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 859656000536 BON domain; Region: BON; cl02771 859656000537 BON domain; Region: BON; cl02771 859656000538 Cytochrome c; Region: Cytochrom_C; cl11414 859656000539 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 859656000540 Flavocytochrome c sulphide dehydrogenase, flavin-binding; Region: FCSD-flav_bind; pfam09242 859656000541 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 859656000542 EamA-like transporter family; Region: EamA; cl01037 859656000543 Cytochrome c; Region: Cytochrom_C; cl11414 859656000544 Superoxide reductase-like (SORL) domain; present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals as a defense mechanism...; Region: SORL; cl00014 859656000545 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 859656000546 DsrE/DsrF-like family; Region: DrsE; cl00672 859656000547 Cytochrome c; Region: Cytochrom_C; cl11414 859656000548 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 859656000549 catalytic residues [active] 859656000550 Thermus thermophilus SoxB and related proteins, N-terminal metallophosphatase domain; Region: MPP_SoxB_N; cd07411 859656000551 active site 859656000552 metal binding site [ion binding]; metal-binding site 859656000553 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 859656000554 Predicted ATPase [General function prediction only]; Region: COG5293 859656000555 Uncharacterized protein conserved in bacteria (DUF2326); Region: DUF2326; pfam10088 859656000556 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 859656000557 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 859656000558 catalytic residues [active] 859656000559 catalytic nucleophile [active] 859656000560 Presynaptic Site I dimer interface [polypeptide binding]; other site 859656000561 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 859656000562 Synaptic Flat tetramer interface [polypeptide binding]; other site 859656000563 Synaptic Site I dimer interface [polypeptide binding]; other site 859656000564 DNA binding site [nucleotide binding] 859656000565 Recombinase; Region: Recombinase; pfam07508 859656000566 Protein of unknown function (DUF2924); Region: DUF2924; pfam11149 859656000567 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 859656000568 hypothetical protein; Validated; Region: PRK07078 859656000569 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 859656000570 active site 859656000571 metal binding site [ion binding]; metal-binding site 859656000572 interdomain interaction site; other site 859656000573 AAA domain; Region: AAA_25; pfam13481 859656000574 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 859656000575 ATP binding site [chemical binding]; other site 859656000576 Walker B motif; other site 859656000577 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 859656000578 RHS Repeat; Region: RHS_repeat; cl11982 859656000579 RHS Repeat; Region: RHS_repeat; cl11982 859656000580 RHS Repeat; Region: RHS_repeat; cl11982 859656000581 RHS Repeat; Region: RHS_repeat; cl11982 859656000582 RHS Repeat; Region: RHS_repeat; cl11982 859656000583 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pcp : cell process 859656000584 Protein of unknown function (DUF1484); Region: DUF1484; pfam07363 859656000585 Protein of unknown function (DUF3489); Region: DUF3489; pfam11994 859656000586 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 859656000587 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 859656000588 TolB amino-terminal domain; Region: TolB_N; cl00639 859656000589 TPR repeat; Region: TPR_11; pfam13414 859656000590 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 859656000591 TPR motif; other site 859656000592 binding surface 859656000593 TPR repeat; Region: TPR_11; pfam13414 859656000594 TPR repeat; Region: TPR_11; pfam13414 859656000595 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 859656000596 binding surface 859656000597 TPR motif; other site 859656000598 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 859656000599 binding surface 859656000600 TPR motif; other site 859656000601 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically 'activated' sulfate form important for the assimilation of...; Region: APSK; cd02027 859656000602 ligand-binding site [chemical binding]; other site 859656000603 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 859656000604 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 859656000605 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 859656000606 binding surface 859656000607 TPR motif; other site 859656000608 Tetratricopeptide repeat; Region: TPR_12; pfam13424 859656000609 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 859656000610 binding surface 859656000611 TPR motif; other site 859656000612 TPR repeat; Region: TPR_11; pfam13414 859656000613 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 859656000614 binding surface 859656000615 TPR motif; other site 859656000616 TPR repeat; Region: TPR_11; pfam13414 859656000617 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 859656000618 binding surface 859656000619 TPR motif; other site 859656000620 Sulfotransferase family; Region: Sulfotransfer_3; cl14559 859656000621 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain [Function unknown]; Region: COG4625 859656000622 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; cl01155 859656000623 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 859656000624 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 859656000625 active site 859656000626 phosphorylation site [posttranslational modification] 859656000627 intermolecular recognition site; other site 859656000628 dimerization interface [polypeptide binding]; other site 859656000629 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 859656000630 dimerization interface [polypeptide binding]; other site 859656000631 DNA binding residues [nucleotide binding] 859656000632 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 859656000633 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 859656000634 ATP binding site [chemical binding]; other site 859656000635 Mg2+ binding site [ion binding]; other site 859656000636 G-X-G motif; other site 859656000637 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 859656000638 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 859656000639 S-adenosylmethionine binding site [chemical binding]; other site 859656000640 HI0933-like protein; Region: HI0933_like; pfam03486 859656000641 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656000642 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656000643 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 859656000644 Major Facilitator Superfamily; Region: MFS_1; pfam07690 859656000645 Streptogramin lyase [Defense mechanisms]; Region: Vgb; COG4257 859656000646 Helix-turn-helix domains; Region: HTH; cl00088 859656000647 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 859656000648 transaminase; Validated; Region: PRK07324 859656000649 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 859656000650 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859656000651 homodimer interface [polypeptide binding]; other site 859656000652 catalytic residue [active] 859656000653 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 859656000654 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656000655 NAD(P) binding site [chemical binding]; other site 859656000656 active site 859656000657 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 859656000658 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 859656000659 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 859656000660 catalytic residue [active] 859656000661 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 859656000662 Tryptophan 2,3-dioxygenase; Region: Trp_dioxygenase; cl03994 859656000663 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 859656000664 active site 859656000665 metal binding site [ion binding]; metal-binding site 859656000666 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 859656000667 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cl15780 859656000668 Cytochrome c; Region: Cytochrom_C; cl11414 859656000669 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 859656000670 non-specific DNA binding site [nucleotide binding]; other site 859656000671 salt bridge; other site 859656000672 sequence-specific DNA binding site [nucleotide binding]; other site 859656000673 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 859656000674 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 859656000675 putative ligand binding site [chemical binding]; other site 859656000676 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 859656000677 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 859656000678 metal binding site [ion binding]; metal-binding site 859656000679 active site 859656000680 I-site; other site 859656000681 PAP2_like proteins, BcrC_like subfamily. Several members of this family have been annotated as bacitracin transport permeases, as it was suspected that they form the permease component of an ABC transporter system. It was shown, however, that BcrC from...; Region: PAP2_BcrC_like; cd03385 859656000682 active site 859656000683 Helix-turn-helix domains; Region: HTH; cl00088 859656000684 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 859656000685 classical (c) SDRs; Region: SDR_c; cd05233 859656000686 NAD(P) binding site [chemical binding]; other site 859656000687 active site 859656000688 TM1410 hypothetical-related protein; Region: DUF297; cl00997 859656000689 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 859656000690 C-terminal Putative NodB-like catalytic domain of PelA-like uncharacterized hypothetical proteins found in bacteria; Region: CE4_PelA_like_C; cd10922 859656000691 putative active site [active] 859656000692 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 859656000693 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 859656000694 dimer interface [polypeptide binding]; other site 859656000695 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 859656000696 putative CheW interface [polypeptide binding]; other site 859656000697 LabA_like proteins; Region: LabA_like; cd06167 859656000698 putative metal binding site [ion binding]; other site 859656000699 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 859656000700 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 859656000701 dinuclear metal binding motif [ion binding]; other site 859656000702 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 859656000703 putative substrate translocation pore; other site 859656000704 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 859656000705 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 859656000706 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 859656000707 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 859656000708 non-specific DNA binding site [nucleotide binding]; other site 859656000709 salt bridge; other site 859656000710 sequence-specific DNA binding site [nucleotide binding]; other site 859656000711 putative allantoin catabolism protein; Region: ura-cupin; TIGR03214 859656000712 Cupin domain; Region: Cupin_2; cl09118 859656000713 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 859656000714 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656000715 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 859656000716 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 859656000717 NAD binding site [chemical binding]; other site 859656000718 substrate binding site [chemical binding]; other site 859656000719 catalytic Zn binding site [ion binding]; other site 859656000720 tetramer interface [polypeptide binding]; other site 859656000721 structural Zn binding site [ion binding]; other site 859656000722 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 859656000723 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 859656000724 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 859656000725 Walker A motif; other site 859656000726 ATP binding site [chemical binding]; other site 859656000727 Walker B motif; other site 859656000728 arginine finger; other site 859656000729 Helix-turn-helix domains; Region: HTH; cl00088 859656000730 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 859656000731 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 859656000732 NAD(P) binding site [chemical binding]; other site 859656000733 catalytic residues [active] 859656000734 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 859656000735 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 859656000736 Ethanolamine ammonia-lyase light chain (EutC); Region: EutC; cl01762 859656000737 exonuclease I; Provisional; Region: sbcB; PRK11779 859656000738 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 859656000739 active site 859656000740 catalytic site [active] 859656000741 substrate binding site [chemical binding]; other site 859656000742 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 859656000743 Evidence 4 : Homologs of previously reported genes of unknown function 859656000744 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 859656000745 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 859656000746 dimer interface [polypeptide binding]; other site 859656000747 PYR/PP interface [polypeptide binding]; other site 859656000748 TPP binding site [chemical binding]; other site 859656000749 substrate binding site [chemical binding]; other site 859656000750 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 859656000751 TPP-binding site; other site 859656000752 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 859656000753 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 859656000754 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 859656000755 DNA-binding site [nucleotide binding]; DNA binding site 859656000756 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 859656000757 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859656000758 homodimer interface [polypeptide binding]; other site 859656000759 catalytic residue [active] 859656000760 Evidence 2b : Function of strongly homologous gene; PubMedId : 10419967, 2124971; Product type t : transporter 859656000761 Evidence 2b : Function of strongly homologous gene; PubMedId : 10419967, 2124971; Product type t : transporter 859656000762 type II secretion system protein E; Region: type_II_gspE; TIGR02533 859656000763 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 859656000764 Walker A motif; other site 859656000765 ATP binding site [chemical binding]; other site 859656000766 Walker B motif; other site 859656000767 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 859656000768 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 859656000769 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 859656000770 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 859656000771 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 859656000772 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 859656000773 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 859656000774 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 859656000775 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 859656000776 GspL periplasmic domain; Region: GspL_C; cl14909 859656000777 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 859656000778 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 859656000779 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 859656000780 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 859656000781 Type II transport protein GspH; Region: GspH; pfam12019 859656000782 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 859656000783 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 859656000784 Type IV pilus biogenesis; Region: Pilus_PilP; cl11837 859656000785 EF-hand domain pair; Region: EF_hand_5; pfam13499 859656000786 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 859656000787 EF-hand domain pair; Region: EF_hand_5; pfam13499 859656000788 Ca2+ binding site [ion binding]; other site 859656000789 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 859656000790 EF-hand domain pair; Region: EF_hand_5; pfam13499 859656000791 Ca2+ binding site [ion binding]; other site 859656000792 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 859656000793 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 859656000794 dimer interface [polypeptide binding]; other site 859656000795 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 859656000796 active site 859656000797 Fe binding site [ion binding]; other site 859656000798 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 859656000799 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 859656000800 putative DNA binding site [nucleotide binding]; other site 859656000801 putative Zn2+ binding site [ion binding]; other site 859656000802 AsnC family; Region: AsnC_trans_reg; pfam01037 859656000803 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 859656000804 Peptidase domain in the S53 family; Region: Peptidases_S53_like; cd05562 859656000805 putative active site [active] 859656000806 putative catalytic triad [active] 859656000807 Peptidase domain in the S53 family; Region: Peptidases_S53_like; cd05562 859656000808 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 859656000809 Cupin domain; Region: Cupin_2; cl09118 859656000810 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 859656000811 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 859656000812 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 859656000813 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 859656000814 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656000815 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 859656000816 Protein of unknown function; Region: DUF3658; pfam12395 859656000817 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 859656000818 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 859656000819 metal binding site [ion binding]; metal-binding site 859656000820 dimer interface [polypeptide binding]; other site 859656000821 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 859656000822 trimer interface [polypeptide binding]; other site 859656000823 eyelet of channel; other site 859656000824 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 859656000825 NMT1-like family; Region: NMT1_2; cl15260 859656000826 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 859656000827 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 859656000828 active site 859656000829 phosphorylation site [posttranslational modification] 859656000830 intermolecular recognition site; other site 859656000831 dimerization interface [polypeptide binding]; other site 859656000832 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 859656000833 DNA binding site [nucleotide binding] 859656000834 High potential iron-sulfur protein; Region: HIPIP; pfam01355 859656000835 Protein of unknown function (DUF1484); Region: DUF1484; pfam07363 859656000836 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 859656000837 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 859656000838 putative transposase OrfB; Reviewed; Region: PHA02517 859656000839 HTH-like domain; Region: HTH_21; pfam13276 859656000840 Integrase core domain; Region: rve; cl01316 859656000841 Integrase core domain; Region: rve_3; cl15866 859656000842 Helix-turn-helix domains; Region: HTH; cl00088 859656000843 Cytochrome c; Region: Cytochrom_C; cl11414 859656000844 Cytochrome c; Region: Cytochrom_C; cl11414 859656000845 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 859656000846 PAS domain; Region: PAS_9; pfam13426 859656000847 putative active site [active] 859656000848 heme pocket [chemical binding]; other site 859656000849 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 859656000850 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 859656000851 dimer interface [polypeptide binding]; other site 859656000852 phosphorylation site [posttranslational modification] 859656000853 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 859656000854 ATP binding site [chemical binding]; other site 859656000855 Mg2+ binding site [ion binding]; other site 859656000856 G-X-G motif; other site 859656000857 Response regulator receiver domain; Region: Response_reg; pfam00072 859656000858 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 859656000859 active site 859656000860 phosphorylation site [posttranslational modification] 859656000861 intermolecular recognition site; other site 859656000862 dimerization interface [polypeptide binding]; other site 859656000863 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 859656000864 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 859656000865 active site 859656000866 phosphorylation site [posttranslational modification] 859656000867 intermolecular recognition site; other site 859656000868 dimerization interface [polypeptide binding]; other site 859656000869 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 859656000870 DNA binding residues [nucleotide binding] 859656000871 dimerization interface [polypeptide binding]; other site 859656000872 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 859656000873 Cation efflux family; Region: Cation_efflux; cl00316 859656000874 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 859656000875 GSH binding site (G-site) [chemical binding]; other site 859656000876 C-terminal domain interface [polypeptide binding]; other site 859656000877 dimer interface [polypeptide binding]; other site 859656000878 C-terminal, alpha helical domain of Class Sigma-like Glutathione S-transferases; Region: GST_C_Sigma_like; cd03192 859656000879 N-terminal domain interface [polypeptide binding]; other site 859656000880 dimer interface [polypeptide binding]; other site 859656000881 substrate binding pocket (H-site) [chemical binding]; other site 859656000882 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 859656000883 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 859656000884 putative substrate translocation pore; other site 859656000885 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 859656000886 Mechanosensitive ion channel; Region: MS_channel; pfam00924 859656000887 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 859656000888 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 859656000889 MltA-interacting protein MipA; Region: MipA; cl01504 859656000890 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 859656000891 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 859656000892 active site 859656000893 phosphorylation site [posttranslational modification] 859656000894 intermolecular recognition site; other site 859656000895 dimerization interface [polypeptide binding]; other site 859656000896 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 859656000897 DNA binding site [nucleotide binding] 859656000898 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 859656000899 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 859656000900 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 859656000901 dimer interface [polypeptide binding]; other site 859656000902 phosphorylation site [posttranslational modification] 859656000903 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 859656000904 ATP binding site [chemical binding]; other site 859656000905 Mg2+ binding site [ion binding]; other site 859656000906 G-X-G motif; other site 859656000907 Cupin domain; Region: Cupin_2; cl09118 859656000908 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 859656000909 Helix-turn-helix domain; Region: HTH_18; pfam12833 859656000910 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 859656000911 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 859656000912 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 859656000913 putative ligand binding site [chemical binding]; other site 859656000914 citrate-proton symporter; Provisional; Region: PRK15075 859656000915 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 859656000916 putative substrate translocation pore; other site 859656000917 citrate-proton symporter; Provisional; Region: PRK15075 859656000918 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 859656000919 putative substrate translocation pore; other site 859656000920 N-acyl-D-glucosamine 2-epimerase [Carbohydrate transport and metabolism]; Region: COG2942 859656000921 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 859656000922 dimerization interface [polypeptide binding]; other site 859656000923 putative active cleft [active] 859656000924 Periplasmic glucans biosynthesis protein [Inorganic ion transport and metabolism]; Region: MdoG; COG3131 859656000925 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 859656000926 Protein of unknown function (DUF1415); Region: DUF1415; cl01301 859656000927 glycerol kinase; Provisional; Region: glpK; PRK00047 859656000928 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 859656000929 N- and C-terminal domain interface [polypeptide binding]; other site 859656000930 active site 859656000931 MgATP binding site [chemical binding]; other site 859656000932 catalytic site [active] 859656000933 metal binding site [ion binding]; metal-binding site 859656000934 glycerol binding site [chemical binding]; other site 859656000935 homotetramer interface [polypeptide binding]; other site 859656000936 homodimer interface [polypeptide binding]; other site 859656000937 FBP binding site [chemical binding]; other site 859656000938 protein IIAGlc interface [polypeptide binding]; other site 859656000939 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 859656000940 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 859656000941 Predicted small integral membrane protein (DUF2160); Region: DUF2160; cl02294 859656000942 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 859656000943 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 859656000944 dimer interface [polypeptide binding]; other site 859656000945 conserved gate region; other site 859656000946 putative PBP binding loops; other site 859656000947 ABC-ATPase subunit interface; other site 859656000948 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 859656000949 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 859656000950 dimer interface [polypeptide binding]; other site 859656000951 conserved gate region; other site 859656000952 putative PBP binding loops; other site 859656000953 ABC-ATPase subunit interface; other site 859656000954 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 859656000955 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 859656000956 Walker A/P-loop; other site 859656000957 ATP binding site [chemical binding]; other site 859656000958 Q-loop/lid; other site 859656000959 ABC transporter signature motif; other site 859656000960 Walker B; other site 859656000961 D-loop; other site 859656000962 H-loop/switch region; other site 859656000963 TOBE domain; Region: TOBE_2; cl01440 859656000964 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 859656000965 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 859656000966 Walker A/P-loop; other site 859656000967 ATP binding site [chemical binding]; other site 859656000968 Q-loop/lid; other site 859656000969 ABC transporter signature motif; other site 859656000970 Walker B; other site 859656000971 D-loop; other site 859656000972 H-loop/switch region; other site 859656000973 TOBE domain; Region: TOBE_2; cl01440 859656000974 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 859656000975 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 859656000976 Helix-turn-helix domains; Region: HTH; cl00088 859656000977 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 859656000978 CHAD domain; Region: CHAD; cl10506 859656000979 potential protein location (protein of unknown function [Ralstonia solanacearum]) that overlaps RNA (ribosomal RNA 16s_rRNA) 859656000980 elongation factor Tu; Reviewed; Region: PRK00049 859656000981 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 859656000982 G1 box; other site 859656000983 GEF interaction site [polypeptide binding]; other site 859656000984 GTP/Mg2+ binding site [chemical binding]; other site 859656000985 Switch I region; other site 859656000986 G2 box; other site 859656000987 G3 box; other site 859656000988 Switch II region; other site 859656000989 G4 box; other site 859656000990 G5 box; other site 859656000991 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 859656000992 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 859656000993 Antibiotic Binding Site [chemical binding]; other site 859656000994 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 859656000995 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 859656000996 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 859656000997 putative homodimer interface [polypeptide binding]; other site 859656000998 KOW motif; Region: KOW; cl00354 859656000999 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 859656001000 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 859656001001 23S rRNA interface [nucleotide binding]; other site 859656001002 L7/L12 interface [polypeptide binding]; other site 859656001003 putative thiostrepton binding site; other site 859656001004 L25 interface [polypeptide binding]; other site 859656001005 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 859656001006 mRNA/rRNA interface [nucleotide binding]; other site 859656001007 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 859656001008 23S rRNA interface [nucleotide binding]; other site 859656001009 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 859656001010 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 859656001011 core dimer interface [polypeptide binding]; other site 859656001012 peripheral dimer interface [polypeptide binding]; other site 859656001013 L10 interface [polypeptide binding]; other site 859656001014 L11 interface [polypeptide binding]; other site 859656001015 putative EF-Tu interaction site [polypeptide binding]; other site 859656001016 putative EF-G interaction site [polypeptide binding]; other site 859656001017 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 859656001018 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 859656001019 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 859656001020 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 859656001021 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 859656001022 RPB11 interaction site [polypeptide binding]; other site 859656001023 RPB12 interaction site [polypeptide binding]; other site 859656001024 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 859656001025 RPB3 interaction site [polypeptide binding]; other site 859656001026 RPB1 interaction site [polypeptide binding]; other site 859656001027 RPB11 interaction site [polypeptide binding]; other site 859656001028 RPB10 interaction site [polypeptide binding]; other site 859656001029 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 859656001030 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 859656001031 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 859656001032 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 859656001033 DNA-directed RNA polymerase, beta'' subunit; Region: rpoC2_cyan; TIGR02388 859656001034 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 859656001035 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 859656001036 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 859656001037 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 859656001038 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 859656001039 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 859656001040 DNA binding site [nucleotide binding] 859656001041 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 859656001042 Uncharacterized protein conserved in bacteria (DUF2138); Region: DUF2138; cl01916 859656001043 Protein of unknown function (DUF1175); Region: DUF1175; cl14898 859656001044 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 859656001045 MG2 domain; Region: A2M_N; pfam01835 859656001046 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 859656001047 Alpha-2-macroglobulin family; Region: A2M; pfam00207 859656001048 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 859656001049 Predicted secreted protein (DUF2300); Region: DUF2300; pfam10062 859656001050 Predicted secreted protein [Function unknown]; Region: COG5445 859656001051 Predicted secreted protein (DUF2300); Region: DUF2300; pfam10062 859656001052 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4676 859656001053 Uncharacterized protein conserved in bacteria (DUF2135); Region: DUF2135; pfam09906 859656001054 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4676 859656001055 Uncharacterized protein conserved in bacteria (DUF2135); Region: DUF2135; pfam09906 859656001056 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 859656001057 S-adenosylmethionine binding site [chemical binding]; other site 859656001058 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 859656001059 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 859656001060 ATP binding site [chemical binding]; other site 859656001061 putative Mg++ binding site [ion binding]; other site 859656001062 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 859656001063 nucleotide binding region [chemical binding]; other site 859656001064 ATP-binding site [chemical binding]; other site 859656001065 RQC domain; Region: RQC; cl09632 859656001066 HRDC domain; Region: HRDC; cl02578 859656001067 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 859656001068 S17 interaction site [polypeptide binding]; other site 859656001069 S8 interaction site; other site 859656001070 16S rRNA interaction site [nucleotide binding]; other site 859656001071 streptomycin interaction site [chemical binding]; other site 859656001072 23S rRNA interaction site [nucleotide binding]; other site 859656001073 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 859656001074 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 859656001075 elongation factor G; Reviewed; Region: PRK00007 859656001076 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 859656001077 G1 box; other site 859656001078 putative GEF interaction site [polypeptide binding]; other site 859656001079 GTP/Mg2+ binding site [chemical binding]; other site 859656001080 Switch I region; other site 859656001081 G2 box; other site 859656001082 G3 box; other site 859656001083 Switch II region; other site 859656001084 G4 box; other site 859656001085 G5 box; other site 859656001086 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 859656001087 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 859656001088 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 859656001089 elongation factor Tu; Reviewed; Region: PRK00049 859656001090 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 859656001091 G1 box; other site 859656001092 GEF interaction site [polypeptide binding]; other site 859656001093 GTP/Mg2+ binding site [chemical binding]; other site 859656001094 Switch I region; other site 859656001095 G2 box; other site 859656001096 G3 box; other site 859656001097 Switch II region; other site 859656001098 G4 box; other site 859656001099 G5 box; other site 859656001100 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 859656001101 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 859656001102 Antibiotic Binding Site [chemical binding]; other site 859656001103 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 859656001104 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 859656001105 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 859656001106 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 859656001107 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 859656001108 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 859656001109 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 859656001110 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 859656001111 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 859656001112 putative translocon binding site; other site 859656001113 protein-rRNA interface [nucleotide binding]; other site 859656001114 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 859656001115 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 859656001116 G-X-X-G motif; other site 859656001117 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 859656001118 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 859656001119 23S rRNA interface [nucleotide binding]; other site 859656001120 5S rRNA interface [nucleotide binding]; other site 859656001121 putative antibiotic binding site [chemical binding]; other site 859656001122 L25 interface [polypeptide binding]; other site 859656001123 L27 interface [polypeptide binding]; other site 859656001124 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 859656001125 23S rRNA interface [nucleotide binding]; other site 859656001126 putative translocon interaction site; other site 859656001127 signal recognition particle (SRP54) interaction site; other site 859656001128 L23 interface [polypeptide binding]; other site 859656001129 trigger factor interaction site; other site 859656001130 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 859656001131 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 859656001132 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 859656001133 KOW motif; Region: KOW; cl00354 859656001134 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 859656001135 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 859656001136 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 859656001137 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 859656001138 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 859656001139 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 859656001140 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 859656001141 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 859656001142 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 859656001143 5S rRNA interface [nucleotide binding]; other site 859656001144 L27 interface [polypeptide binding]; other site 859656001145 23S rRNA interface [nucleotide binding]; other site 859656001146 L5 interface [polypeptide binding]; other site 859656001147 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 859656001148 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 859656001149 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 859656001150 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 859656001151 23S rRNA binding site [nucleotide binding]; other site 859656001152 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 859656001153 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 859656001154 SecY translocase; Region: SecY; pfam00344 859656001155 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 859656001156 rRNA binding site [nucleotide binding]; other site 859656001157 predicted 30S ribosome binding site; other site 859656001158 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 859656001159 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 859656001160 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 859656001161 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 859656001162 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 859656001163 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 859656001164 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 859656001165 RNA binding surface [nucleotide binding]; other site 859656001166 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 859656001167 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 859656001168 alphaNTD homodimer interface [polypeptide binding]; other site 859656001169 alphaNTD - beta interaction site [polypeptide binding]; other site 859656001170 alphaNTD - beta' interaction site [polypeptide binding]; other site 859656001171 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 859656001172 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 859656001173 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 859656001174 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 859656001175 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 859656001176 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 859656001177 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 859656001178 DsbD alpha interface [polypeptide binding]; other site 859656001179 catalytic residues [active] 859656001180 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 859656001181 dimer interface [polypeptide binding]; other site 859656001182 active site 859656001183 aspartate-rich active site metal binding site; other site 859656001184 allosteric magnesium binding site [ion binding]; other site 859656001185 Schiff base residues; other site 859656001186 Predicted GTPase [General function prediction only]; Region: COG0218 859656001187 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 859656001188 G1 box; other site 859656001189 GTP/Mg2+ binding site [chemical binding]; other site 859656001190 Switch I region; other site 859656001191 G2 box; other site 859656001192 G3 box; other site 859656001193 Switch II region; other site 859656001194 G4 box; other site 859656001195 G5 box; other site 859656001196 Cytochrome c; Region: Cytochrom_C; cl11414 859656001197 Cytochrome c; Region: Cytochrom_C; cl11414 859656001198 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 859656001199 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 859656001200 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 859656001201 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 859656001202 RNA polymerase sigma factor; Provisional; Region: PRK12547 859656001203 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 859656001204 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 859656001205 DNA binding residues [nucleotide binding] 859656001206 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 859656001207 TMAO/DMSO reductase; Reviewed; Region: PRK05363 859656001208 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 859656001209 Moco binding site; other site 859656001210 metal coordination site [ion binding]; other site 859656001211 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 859656001212 diaminopimelate decarboxylase; Region: lysA; TIGR01048 859656001213 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 859656001214 active site 859656001215 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 859656001216 substrate binding site [chemical binding]; other site 859656001217 catalytic residues [active] 859656001218 dimer interface [polypeptide binding]; other site 859656001219 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate in...; Region: Frataxin; cd00503 859656001220 putative iron binding site [ion binding]; other site 859656001221 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 859656001222 Transglycosylase; Region: Transgly; cl07896 859656001223 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 859656001224 Cell division protein FtsA; Region: FtsA; cl11496 859656001225 Competence protein A; Region: Competence_A; pfam11104 859656001226 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 859656001227 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 859656001228 Pilus assembly protein, PilO; Region: PilO; cl01234 859656001229 Pilus assembly protein, PilP; Region: PilP; pfam04351 859656001230 AMIN domain; Region: AMIN; pfam11741 859656001231 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 859656001232 Secretin and TonB N terminus short domain; Region: STN; cl06624 859656001233 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 859656001234 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 859656001235 shikimate kinase; Reviewed; Region: aroK; PRK00131 859656001236 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 859656001237 ADP binding site [chemical binding]; other site 859656001238 magnesium binding site [ion binding]; other site 859656001239 putative shikimate binding site; other site 859656001240 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 859656001241 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 859656001242 active site 859656001243 dimer interface [polypeptide binding]; other site 859656001244 metal binding site [ion binding]; metal-binding site 859656001245 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 859656001246 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 859656001247 Zn2+ binding site [ion binding]; other site 859656001248 Mg2+ binding site [ion binding]; other site 859656001249 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 859656001250 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; cl01155 859656001251 Transposase IS200 like; Region: Y1_Tnp; cl00848 859656001252 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 859656001253 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 859656001254 active site 859656001255 dimer interface [polypeptide binding]; other site 859656001256 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 859656001257 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 859656001258 active site 859656001259 FMN binding site [chemical binding]; other site 859656001260 substrate binding site [chemical binding]; other site 859656001261 3Fe-4S cluster binding site [ion binding]; other site 859656001262 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 859656001263 domain interface; other site 859656001264 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 859656001265 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656001266 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 859656001267 NMT1-like family; Region: NMT1_2; cl15260 859656001268 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 859656001269 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 859656001270 Walker A/P-loop; other site 859656001271 ATP binding site [chemical binding]; other site 859656001272 Q-loop/lid; other site 859656001273 ABC transporter signature motif; other site 859656001274 Walker B; other site 859656001275 D-loop; other site 859656001276 H-loop/switch region; other site 859656001277 Permease; Region: Permease; cl00510 859656001278 mce related protein; Region: MCE; pfam02470 859656001279 VacJ like lipoprotein; Region: VacJ; cl01073 859656001280 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 859656001281 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 859656001282 anti sigma factor interaction site; other site 859656001283 regulatory phosphorylation site [posttranslational modification]; other site 859656001284 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 859656001285 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 859656001286 Walker A/P-loop; other site 859656001287 ATP binding site [chemical binding]; other site 859656001288 Q-loop/lid; other site 859656001289 ABC transporter signature motif; other site 859656001290 Walker B; other site 859656001291 D-loop; other site 859656001292 H-loop/switch region; other site 859656001293 ABC-2 type transporter; Region: ABC2_membrane; cl11417 859656001294 BolA-like protein; Region: BolA; cl00386 859656001295 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 859656001296 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 859656001297 hinge; other site 859656001298 active site 859656001299 ATP phosphoribosyltransferase; Region: HisG; cl15266 859656001300 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 859656001301 histidinol dehydrogenase; Region: hisD; TIGR00069 859656001302 NAD binding site [chemical binding]; other site 859656001303 dimerization interface [polypeptide binding]; other site 859656001304 product binding site; other site 859656001305 substrate binding site [chemical binding]; other site 859656001306 zinc binding site [ion binding]; other site 859656001307 catalytic residues [active] 859656001308 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 859656001309 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 859656001310 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859656001311 homodimer interface [polypeptide binding]; other site 859656001312 catalytic residue [active] 859656001313 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 859656001314 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 859656001315 putative active site pocket [active] 859656001316 4-fold oligomerization interface [polypeptide binding]; other site 859656001317 metal binding residues [ion binding]; metal-binding site 859656001318 3-fold/trimer interface [polypeptide binding]; other site 859656001319 MarC family integral membrane protein; Region: MarC; cl00919 859656001320 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 859656001321 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 859656001322 putative active site [active] 859656001323 oxyanion strand; other site 859656001324 catalytic triad [active] 859656001325 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]; Region: HisA; COG0106 859656001326 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 859656001327 catalytic residues [active] 859656001328 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 859656001329 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 859656001330 substrate binding site [chemical binding]; other site 859656001331 glutamase interaction surface [polypeptide binding]; other site 859656001332 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 859656001333 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 859656001334 metal binding site [ion binding]; metal-binding site 859656001335 Predicted membrane protein [Function unknown]; Region: COG3671 859656001336 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 859656001337 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 859656001338 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 859656001339 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 859656001340 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 859656001341 Walker A/P-loop; other site 859656001342 ATP binding site [chemical binding]; other site 859656001343 Q-loop/lid; other site 859656001344 ABC transporter signature motif; other site 859656001345 Walker B; other site 859656001346 D-loop; other site 859656001347 H-loop/switch region; other site 859656001348 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 859656001349 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 859656001350 dimer interface [polypeptide binding]; other site 859656001351 conserved gate region; other site 859656001352 ABC-ATPase subunit interface; other site 859656001353 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 859656001354 dimer interface [polypeptide binding]; other site 859656001355 conserved gate region; other site 859656001356 putative PBP binding loops; other site 859656001357 ABC-ATPase subunit interface; other site 859656001358 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 859656001359 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 859656001360 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 859656001361 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 859656001362 dimer interface [polypeptide binding]; other site 859656001363 phosphorylation site [posttranslational modification] 859656001364 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 859656001365 ATP binding site [chemical binding]; other site 859656001366 Mg2+ binding site [ion binding]; other site 859656001367 G-X-G motif; other site 859656001368 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 859656001369 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 859656001370 active site 859656001371 phosphorylation site [posttranslational modification] 859656001372 intermolecular recognition site; other site 859656001373 dimerization interface [polypeptide binding]; other site 859656001374 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 859656001375 DNA binding site [nucleotide binding] 859656001376 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 859656001377 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 859656001378 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 859656001379 trimer interface [polypeptide binding]; other site 859656001380 eyelet of channel; other site 859656001381 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 859656001382 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 859656001383 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 859656001384 protein binding site [polypeptide binding]; other site 859656001385 Uncharacterized conserved protein [Function unknown]; Region: COG0327 859656001386 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 859656001387 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 859656001388 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 859656001389 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 859656001390 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 859656001391 [2Fe-2S] cluster binding site [ion binding]; other site 859656001392 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 859656001393 Qi binding site; other site 859656001394 intrachain domain interface; other site 859656001395 interchain domain interface [polypeptide binding]; other site 859656001396 cytochrome b; Provisional; Region: CYTB; MTH00145 859656001397 heme bH binding site [chemical binding]; other site 859656001398 heme bL binding site [chemical binding]; other site 859656001399 Qo binding site; other site 859656001400 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; cl00193 859656001401 interchain domain interface [polypeptide binding]; other site 859656001402 intrachain domain interface; other site 859656001403 Qi binding site; other site 859656001404 Qo binding site; other site 859656001405 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 859656001406 stringent starvation protein A; Provisional; Region: sspA; PRK09481 859656001407 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 859656001408 C-terminal domain interface [polypeptide binding]; other site 859656001409 putative GSH binding site (G-site) [chemical binding]; other site 859656001410 dimer interface [polypeptide binding]; other site 859656001411 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 859656001412 dimer interface [polypeptide binding]; other site 859656001413 N-terminal domain interface [polypeptide binding]; other site 859656001414 Stringent starvation protein B; Region: SspB; cl01120 859656001415 transcriptional regulator; Provisional; Region: PRK10632 859656001416 Helix-turn-helix domains; Region: HTH; cl00088 859656001417 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 859656001418 putative effector binding pocket; other site 859656001419 putative dimerization interface [polypeptide binding]; other site 859656001420 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 859656001421 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 859656001422 Uncharacterized protein conserved in bacteria (DUF2314); Region: DUF2314; pfam10077 859656001423 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 859656001424 dimer interface [polypeptide binding]; other site 859656001425 phosphorylation site [posttranslational modification] 859656001426 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 859656001427 ATP binding site [chemical binding]; other site 859656001428 Mg2+ binding site [ion binding]; other site 859656001429 G-X-G motif; other site 859656001430 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 859656001431 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 859656001432 N-terminal plug; other site 859656001433 ligand-binding site [chemical binding]; other site 859656001434 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 859656001435 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 859656001436 Secretin and TonB N terminus short domain; Region: STN; cl06624 859656001437 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 859656001438 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 859656001439 N-terminal plug; other site 859656001440 ligand-binding site [chemical binding]; other site 859656001441 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 859656001442 FecR protein; Region: FecR; pfam04773 859656001443 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 859656001444 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 859656001445 DNA binding residues [nucleotide binding] 859656001446 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 859656001447 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 859656001448 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 859656001449 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 859656001450 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 859656001451 D-pathway; other site 859656001452 Putative ubiquinol binding site [chemical binding]; other site 859656001453 Low-spin heme (heme b) binding site [chemical binding]; other site 859656001454 Putative water exit pathway; other site 859656001455 Binuclear center (heme o3/CuB) [ion binding]; other site 859656001456 K-pathway; other site 859656001457 Putative proton exit pathway; other site 859656001458 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 859656001459 Subunit I/III interface [polypeptide binding]; other site 859656001460 Subunit III/IV interface [polypeptide binding]; other site 859656001461 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 859656001462 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 859656001463 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 859656001464 Walker A/P-loop; other site 859656001465 ATP binding site [chemical binding]; other site 859656001466 Q-loop/lid; other site 859656001467 ABC transporter signature motif; other site 859656001468 Walker B; other site 859656001469 D-loop; other site 859656001470 H-loop/switch region; other site 859656001471 ABC transporter; Region: ABC_tran_2; pfam12848 859656001472 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 859656001473 Zinc finger domain containing protein (CDGSH-type) [Function unknown]; Region: COG3369 859656001474 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; cl02748 859656001475 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 859656001476 putative deacylase active site [active] 859656001477 Membrane glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: MdoH; COG2943 859656001478 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 859656001479 Ligand binding site; other site 859656001480 DXD motif; other site 859656001481 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 859656001482 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 859656001483 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 859656001484 Flavoprotein; Region: Flavoprotein; cl08021 859656001485 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 859656001486 putative GSH binding site [chemical binding]; other site 859656001487 catalytic residues [active] 859656001488 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 859656001489 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 859656001490 peptide chain release factor 1; Validated; Region: prfA; PRK00591 859656001491 RF-1 domain; Region: RF-1; cl02875 859656001492 RF-1 domain; Region: RF-1; cl02875 859656001493 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 859656001494 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 859656001495 tRNA; other site 859656001496 putative tRNA binding site [nucleotide binding]; other site 859656001497 putative NADP binding site [chemical binding]; other site 859656001498 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 859656001499 GTP-binding protein YchF; Reviewed; Region: PRK09601 859656001500 YchF GTPase; Region: YchF; cd01900 859656001501 G1 box; other site 859656001502 GTP/Mg2+ binding site [chemical binding]; other site 859656001503 Switch I region; other site 859656001504 G2 box; other site 859656001505 Switch II region; other site 859656001506 G3 box; other site 859656001507 G4 box; other site 859656001508 G5 box; other site 859656001509 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 859656001510 Flagellar protein FliT; Region: FliT; cl05125 859656001511 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 859656001512 N-acetyl-D-glucosamine binding site [chemical binding]; other site 859656001513 catalytic residue [active] 859656001514 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656001515 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 859656001516 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 859656001517 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 859656001518 dimerization domain [polypeptide binding]; other site 859656001519 dimer interface [polypeptide binding]; other site 859656001520 catalytic residues [active] 859656001521 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 859656001522 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 859656001523 NADP binding site [chemical binding]; other site 859656001524 dimer interface [polypeptide binding]; other site 859656001525 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 859656001526 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 859656001527 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 859656001528 protein binding site [polypeptide binding]; other site 859656001529 Predicted membrane protein [Function unknown]; Region: COG1289 859656001530 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 859656001531 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 859656001532 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 859656001533 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 859656001534 ligand binding site [chemical binding]; other site 859656001535 active site 859656001536 UGI interface [polypeptide binding]; other site 859656001537 catalytic site [active] 859656001538 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 859656001539 putative active site [active] 859656001540 putative metal binding residues [ion binding]; other site 859656001541 signature motif; other site 859656001542 putative triphosphate binding site [ion binding]; other site 859656001543 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 859656001544 active site 859656001545 ribulose/triose binding site [chemical binding]; other site 859656001546 phosphate binding site [ion binding]; other site 859656001547 substrate (anthranilate) binding pocket [chemical binding]; other site 859656001548 product (indole) binding pocket [chemical binding]; other site 859656001549 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 859656001550 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 859656001551 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 859656001552 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 859656001553 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 859656001554 glutamine binding [chemical binding]; other site 859656001555 catalytic triad [active] 859656001556 anthranilate synthase component I; Provisional; Region: PRK13565 859656001557 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 859656001558 chorismate binding enzyme; Region: Chorismate_bind; cl10555 859656001559 phosphoglycolate phosphatase; Provisional; Region: PRK13222 859656001560 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 859656001561 motif II; other site 859656001562 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 859656001563 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 859656001564 substrate binding site [chemical binding]; other site 859656001565 hexamer interface [polypeptide binding]; other site 859656001566 metal binding site [ion binding]; metal-binding site 859656001567 Protein of unknown function (DUF525); Region: DUF525; cl01119 859656001568 putative assembly protein; Region: PHA00350 859656001569 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 859656001570 MltA specific insert domain; Region: MltA; cl08398 859656001571 3D domain; Region: 3D; cl01439 859656001572 AMP-binding enzyme; Region: AMP-binding; cl15778 859656001573 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 859656001574 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 859656001575 CoenzymeA binding site [chemical binding]; other site 859656001576 subunit interaction site [polypeptide binding]; other site 859656001577 PHB binding site; other site 859656001578 enoyl-CoA hydratase; Provisional; Region: PRK08140 859656001579 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 859656001580 substrate binding site [chemical binding]; other site 859656001581 oxyanion hole (OAH) forming residues; other site 859656001582 trimer interface [polypeptide binding]; other site 859656001583 enoyl-CoA hydratase; Provisional; Region: PRK05862 859656001584 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 859656001585 substrate binding site [chemical binding]; other site 859656001586 oxyanion hole (OAH) forming residues; other site 859656001587 trimer interface [polypeptide binding]; other site 859656001588 potential protein location (protein of unknown function [Ralstonia solanacearum]) that overlaps RNA (ribosomal RNA 16s_rRNA) 859656001589 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 859656001590 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 859656001591 metal binding site [ion binding]; metal-binding site 859656001592 putative dimer interface [polypeptide binding]; other site 859656001593 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_2; cd08498 859656001594 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 859656001595 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 859656001596 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 859656001597 dimer interface [polypeptide binding]; other site 859656001598 conserved gate region; other site 859656001599 putative PBP binding loops; other site 859656001600 ABC-ATPase subunit interface; other site 859656001601 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 859656001602 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 859656001603 dimer interface [polypeptide binding]; other site 859656001604 conserved gate region; other site 859656001605 putative PBP binding loops; other site 859656001606 ABC-ATPase subunit interface; other site 859656001607 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 859656001608 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 859656001609 Walker A/P-loop; other site 859656001610 ATP binding site [chemical binding]; other site 859656001611 Q-loop/lid; other site 859656001612 ABC transporter signature motif; other site 859656001613 Walker B; other site 859656001614 D-loop; other site 859656001615 H-loop/switch region; other site 859656001616 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 859656001617 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 859656001618 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 859656001619 Walker A/P-loop; other site 859656001620 ATP binding site [chemical binding]; other site 859656001621 Q-loop/lid; other site 859656001622 ABC transporter signature motif; other site 859656001623 Walker B; other site 859656001624 D-loop; other site 859656001625 H-loop/switch region; other site 859656001626 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 859656001627 acetylornithine deacetylase (ArgE); Region: AcOrn-deacetyl; TIGR01892 859656001628 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 859656001629 metal binding site [ion binding]; metal-binding site 859656001630 putative dimer interface [polypeptide binding]; other site 859656001631 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 859656001632 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 859656001633 putative ligand binding site [chemical binding]; other site 859656001634 PTS_IIB: subunit IIB of enzyme II (EII) is the central energy-coupling domain of the phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In the multienzyme PTS complex, EII is a carbohydrate-specific permease consisting of two cytoplasmic...; Region: PTS_IIB; cl10014 859656001635 active site 859656001636 P-loop; other site 859656001637 phosphorylation site [posttranslational modification] 859656001638 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 859656001639 active site 859656001640 P-loop; other site 859656001641 phosphorylation site [posttranslational modification] 859656001642 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 859656001643 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 859656001644 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 859656001645 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 859656001646 putative substrate binding site [chemical binding]; other site 859656001647 putative ATP binding site [chemical binding]; other site 859656001648 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 859656001649 active site 859656001650 phosphorylation site [posttranslational modification] 859656001651 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 859656001652 dimerization domain swap beta strand [polypeptide binding]; other site 859656001653 regulatory protein interface [polypeptide binding]; other site 859656001654 active site 859656001655 regulatory phosphorylation site [posttranslational modification]; other site 859656001656 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 859656001657 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 859656001658 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 859656001659 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 859656001660 Transcriptional regulators [Transcription]; Region: PurR; COG1609 859656001661 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 859656001662 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_4; cd06280 859656001663 putative dimerization interface [polypeptide binding]; other site 859656001664 putative ligand binding site [chemical binding]; other site 859656001665 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 859656001666 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 859656001667 putative [4Fe-4S] binding site [ion binding]; other site 859656001668 putative molybdopterin cofactor binding site [chemical binding]; other site 859656001669 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 859656001670 putative molybdopterin cofactor binding site; other site 859656001671 Predicted aminopeptidase (DUF2265); Region: DUF2265; pfam10023 859656001672 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 859656001673 AMP-binding enzyme; Region: AMP-binding; cl15778 859656001674 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 859656001675 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 859656001676 metabolite-proton symporter; Region: 2A0106; TIGR00883 859656001677 putative substrate translocation pore; other site 859656001678 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 859656001679 trimer interface [polypeptide binding]; other site 859656001680 eyelet of channel; other site 859656001681 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 859656001682 diiron binding motif [ion binding]; other site 859656001683 cell division protein MraZ; Reviewed; Region: PRK00326 859656001684 MraZ protein; Region: MraZ; pfam02381 859656001685 MraZ protein; Region: MraZ; pfam02381 859656001686 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 859656001687 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 859656001688 Septum formation initiator; Region: DivIC; cl11433 859656001689 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 859656001690 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 859656001691 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 859656001692 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 859656001693 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 859656001694 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 859656001695 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 859656001696 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 859656001697 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 859656001698 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 859656001699 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 859656001700 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 859656001701 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 859656001702 Mg++ binding site [ion binding]; other site 859656001703 putative catalytic motif [active] 859656001704 putative substrate binding site [chemical binding]; other site 859656001705 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02006 859656001706 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 859656001707 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 859656001708 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 859656001709 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 859656001710 active site 859656001711 homodimer interface [polypeptide binding]; other site 859656001712 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 859656001713 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 859656001714 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 859656001715 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 859656001716 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 859656001717 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 859656001718 ATP-grasp domain; Region: ATP-grasp_4; cl03087 859656001719 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 859656001720 Cell division protein FtsQ; Region: FtsQ; pfam03799 859656001721 cell division protein FtsA; Region: ftsA; TIGR01174 859656001722 Cell division protein FtsA; Region: FtsA; cl11496 859656001723 Cell division protein FtsA; Region: FtsA; cl11496 859656001724 cell division protein FtsZ; Validated; Region: PRK09330 859656001725 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 859656001726 nucleotide binding site [chemical binding]; other site 859656001727 SulA interaction site; other site 859656001728 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 859656001729 catalytic triad [active] 859656001730 dimer interface [polypeptide binding]; other site 859656001731 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 859656001732 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 859656001733 Protein of unknown function (DUF721); Region: DUF721; cl02324 859656001734 Peptidase family M23; Region: Peptidase_M23; pfam01551 859656001735 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 859656001736 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 859656001737 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 859656001738 SEC-C motif; Region: SEC-C; pfam02810 859656001739 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 859656001740 heterotetramer interface [polypeptide binding]; other site 859656001741 active site pocket [active] 859656001742 cleavage site 859656001743 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 859656001744 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 859656001745 Walker A motif; other site 859656001746 ATP binding site [chemical binding]; other site 859656001747 Walker B motif; other site 859656001748 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 859656001749 active site 859656001750 8-oxo-dGMP binding site [chemical binding]; other site 859656001751 nudix motif; other site 859656001752 metal binding site [ion binding]; metal-binding site 859656001753 Domain of unknown function (DUF329); Region: DUF329; cl01144 859656001754 Protein of unknown function (DUF1342); Region: DUF1342; cl01892 859656001755 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 859656001756 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 859656001757 CoA-binding site [chemical binding]; other site 859656001758 ATP-binding [chemical binding]; other site 859656001759 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 859656001760 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 859656001761 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 859656001762 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 859656001763 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 859656001764 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 859656001765 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 859656001766 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 859656001767 Walker A motif; other site 859656001768 ATP binding site [chemical binding]; other site 859656001769 Walker B motif; other site 859656001770 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 859656001771 Domain of unknown function DUF21; Region: DUF21; pfam01595 859656001772 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 859656001773 Transporter associated domain; Region: CorC_HlyC; cl08393 859656001774 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 859656001775 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 859656001776 substrate binding pocket [chemical binding]; other site 859656001777 chain length determination region; other site 859656001778 substrate-Mg2+ binding site; other site 859656001779 catalytic residues [active] 859656001780 aspartate-rich region 1; other site 859656001781 active site lid residues [active] 859656001782 aspartate-rich region 2; other site 859656001783 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 859656001784 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 859656001785 GTPase CgtA; Reviewed; Region: obgE; PRK12299 859656001786 GTP1/OBG; Region: GTP1_OBG; pfam01018 859656001787 Obg GTPase; Region: Obg; cd01898 859656001788 G1 box; other site 859656001789 GTP/Mg2+ binding site [chemical binding]; other site 859656001790 Switch I region; other site 859656001791 G2 box; other site 859656001792 G3 box; other site 859656001793 Switch II region; other site 859656001794 G4 box; other site 859656001795 G5 box; other site 859656001796 gamma-glutamyl kinase; Provisional; Region: PRK05429 859656001797 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 859656001798 nucleotide binding site [chemical binding]; other site 859656001799 homotetrameric interface [polypeptide binding]; other site 859656001800 putative phosphate binding site [ion binding]; other site 859656001801 putative allosteric binding site; other site 859656001802 PUA domain; Region: PUA; cl00607 859656001803 CNP1-like family; Region: CNP1; pfam08750 859656001804 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 859656001805 putative active site [active] 859656001806 Ap4A binding site [chemical binding]; other site 859656001807 nudix motif; other site 859656001808 putative metal binding site [ion binding]; other site 859656001809 prolyl-tRNA synthetase; Provisional; Region: PRK09194 859656001810 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 859656001811 dimer interface [polypeptide binding]; other site 859656001812 motif 1; other site 859656001813 active site 859656001814 motif 2; other site 859656001815 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 859656001816 putative deacylase active site [active] 859656001817 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 859656001818 active site 859656001819 motif 3; other site 859656001820 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 859656001821 anticodon binding site; other site 859656001822 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 859656001823 N-acetyl-D-glucosamine binding site [chemical binding]; other site 859656001824 catalytic residue [active] 859656001825 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 859656001826 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 859656001827 MarC family integral membrane protein; Region: MarC; cl00919 859656001828 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 859656001829 active site 859656001830 signal recognition particle protein; Provisional; Region: PRK10867 859656001831 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 859656001832 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 859656001833 P loop; other site 859656001834 GTP binding site [chemical binding]; other site 859656001835 Signal peptide binding domain; Region: SRP_SPB; pfam02978 859656001836 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 859656001837 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 859656001838 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 859656001839 dimer interface [polypeptide binding]; other site 859656001840 phosphorylation site [posttranslational modification] 859656001841 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 859656001842 ATP binding site [chemical binding]; other site 859656001843 Mg2+ binding site [ion binding]; other site 859656001844 G-X-G motif; other site 859656001845 Response regulator receiver domain; Region: Response_reg; pfam00072 859656001846 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 859656001847 active site 859656001848 phosphorylation site [posttranslational modification] 859656001849 intermolecular recognition site; other site 859656001850 dimerization interface [polypeptide binding]; other site 859656001851 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 859656001852 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 859656001853 Walker A motif; other site 859656001854 ATP binding site [chemical binding]; other site 859656001855 Walker B motif; other site 859656001856 arginine finger; other site 859656001857 Helix-turn-helix domains; Region: HTH; cl00088 859656001858 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 859656001859 amidase catalytic site [active] 859656001860 Zn binding residues [ion binding]; other site 859656001861 substrate binding site [chemical binding]; other site 859656001862 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 859656001863 ATP cone domain; Region: ATP-cone; pfam03477 859656001864 Class I ribonucleotide reductase; Region: RNR_I; cd01679 859656001865 active site 859656001866 dimer interface [polypeptide binding]; other site 859656001867 catalytic residues [active] 859656001868 effector binding site; other site 859656001869 R2 peptide binding site; other site 859656001870 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 859656001871 dimer interface [polypeptide binding]; other site 859656001872 putative radical transfer pathway; other site 859656001873 diiron center [ion binding]; other site 859656001874 tyrosyl radical; other site 859656001875 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_6; cd06233 859656001876 putative active site [active] 859656001877 Zn binding site [ion binding]; other site 859656001878 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 859656001879 EamA-like transporter family; Region: EamA; cl01037 859656001880 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 859656001881 Helix-turn-helix domains; Region: HTH; cl00088 859656001882 AsnC family; Region: AsnC_trans_reg; pfam01037 859656001883 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 859656001884 Cache domain; Region: Cache_2; cl07034 859656001885 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 859656001886 dimer interface [polypeptide binding]; other site 859656001887 putative CheW interface [polypeptide binding]; other site 859656001888 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 859656001889 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 859656001890 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 859656001891 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 859656001892 substrate binding site [chemical binding]; other site 859656001893 ATP binding site [chemical binding]; other site 859656001894 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 859656001895 dimer interface [polypeptide binding]; other site 859656001896 catalytic triad [active] 859656001897 peroxidatic and resolving cysteines [active] 859656001898 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 859656001899 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 859656001900 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 859656001901 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 859656001902 S-adenosylmethionine binding site [chemical binding]; other site 859656001903 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 859656001904 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 859656001905 ATP-grasp domain; Region: ATP-grasp_4; cl03087 859656001906 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 859656001907 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 859656001908 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 859656001909 carboxyltransferase (CT) interaction site; other site 859656001910 biotinylation site [posttranslational modification]; other site 859656001911 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 859656001912 trimer interface [polypeptide binding]; other site 859656001913 active site 859656001914 dimer interface [polypeptide binding]; other site 859656001915 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 859656001916 catalytic residues [active] 859656001917 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 859656001918 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 859656001919 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 859656001920 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 859656001921 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 859656001922 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 859656001923 UTRA domain; Region: UTRA; cl01230 859656001924 Exoribonuclease R [Transcription]; Region: VacB; COG0557 859656001925 RNB domain; Region: RNB; pfam00773 859656001926 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 859656001927 Gram-negative bacterial tonB protein; Region: TonB; cl10048 859656001928 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 859656001929 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 859656001930 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 859656001931 shikimate binding site; other site 859656001932 NAD(P) binding site [chemical binding]; other site 859656001933 Transglycosylase; Region: Transgly; cl07896 859656001934 Pectate lyase; Region: Pectate_lyase; pfam03211 859656001935 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 859656001936 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 859656001937 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 859656001938 active site 859656001939 dimer interface [polypeptide binding]; other site 859656001940 Cation efflux family; Region: Cation_efflux; cl00316 859656001941 Cation efflux family; Region: Cation_efflux; cl00316 859656001942 Competence-damaged protein; Region: CinA; cl00666 859656001943 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 859656001944 tetramer interfaces [polypeptide binding]; other site 859656001945 binuclear metal-binding site [ion binding]; other site 859656001946 thiamine monophosphate kinase; Provisional; Region: PRK05731 859656001947 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 859656001948 ATP binding site [chemical binding]; other site 859656001949 dimerization interface [polypeptide binding]; other site 859656001950 malic enzyme; Reviewed; Region: PRK12862 859656001951 Malic enzyme, N-terminal domain; Region: malic; pfam00390 859656001952 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 859656001953 putative NAD(P) binding site [chemical binding]; other site 859656001954 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 859656001955 RNase_Sa. Ribonucleases first isolated from Streptomyces aureofaciens. In general, ribonucleases cleave phosphodiester bonds in RNA and are essential for both non-specific RNA degradation and for numerous forms of RNA processing. RNAse Sa is a guanylate...; Region: RNase_Sa; cd00607 859656001956 active site 859656001957 barstar interaction site; other site 859656001958 Barstar_evA4336-like contains uncharacterized sequences similar to the uncharacterized, predicted RNAase inhibitor evA4336 found in Azoarcus sp. EvN1. This is a subfamily of the Barstar family of RNAase inhibitors. Barstar is an intracellular inhibitor...; Region: Barstar_evA4336-like; cd05141 859656001959 putative RNAase interaction site [polypeptide binding]; other site 859656001960 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 859656001961 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 859656001962 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 859656001963 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 859656001964 putative dimer interface [polypeptide binding]; other site 859656001965 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 859656001966 transketolase; Reviewed; Region: PRK12753 859656001967 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 859656001968 TPP-binding site [chemical binding]; other site 859656001969 dimer interface [polypeptide binding]; other site 859656001970 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 859656001971 PYR/PP interface [polypeptide binding]; other site 859656001972 dimer interface [polypeptide binding]; other site 859656001973 TPP binding site [chemical binding]; other site 859656001974 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 859656001975 glyceraldehyde-3-phosphate dehydrogenase; Provisional; Region: PTZ00023 859656001976 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656001977 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 859656001978 DNA-binding transcriptional regulator YidZ; Provisional; Region: PRK10216 859656001979 Helix-turn-helix domains; Region: HTH; cl00088 859656001980 The C-terminal substrate binding domain of LysR-type transcriptional regulator LeuO, an activator of leucine synthesis operon, contains the type 2 periplasmic binding fold; Region: PBP2_LeuO; cd08466 859656001981 putative substrate binding pocket [chemical binding]; other site 859656001982 putative dimerization interface [polypeptide binding]; other site 859656001983 ferric uptake regulator; Provisional; Region: fur; PRK09462 859656001984 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 859656001985 metal binding site 2 [ion binding]; metal-binding site 859656001986 putative DNA binding helix; other site 859656001987 metal binding site 1 [ion binding]; metal-binding site 859656001988 dimer interface [polypeptide binding]; other site 859656001989 structural Zn2+ binding site [ion binding]; other site 859656001990 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 859656001991 dihydrodipicolinate reductase; Provisional; Region: PRK00048 859656001992 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656001993 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 859656001994 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 859656001995 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 859656001996 HIGH motif; other site 859656001997 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 859656001998 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 859656001999 active site 859656002000 KMSKS motif; other site 859656002001 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 859656002002 tRNA binding surface [nucleotide binding]; other site 859656002003 Lipopolysaccharide-assembly; Region: LptE; cl01125 859656002004 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 859656002005 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 859656002006 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 859656002007 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 859656002008 putative catalytic cysteine [active] 859656002009 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 859656002010 THUMP domain; Region: THUMP; cl12076 859656002011 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 859656002012 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 859656002013 Response regulator receiver domain; Region: Response_reg; pfam00072 859656002014 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 859656002015 active site 859656002016 phosphorylation site [posttranslational modification] 859656002017 intermolecular recognition site; other site 859656002018 dimerization interface [polypeptide binding]; other site 859656002019 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 859656002020 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 859656002021 active site 859656002022 phosphorylation site [posttranslational modification] 859656002023 intermolecular recognition site; other site 859656002024 dimerization interface [polypeptide binding]; other site 859656002025 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 859656002026 dimer interface [polypeptide binding]; other site 859656002027 phosphorylation site [posttranslational modification] 859656002028 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 859656002029 ATP binding site [chemical binding]; other site 859656002030 Mg2+ binding site [ion binding]; other site 859656002031 G-X-G motif; other site 859656002032 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 859656002033 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 859656002034 dimer interface [polypeptide binding]; other site 859656002035 phosphorylation site [posttranslational modification] 859656002036 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 859656002037 ATP binding site [chemical binding]; other site 859656002038 Mg2+ binding site [ion binding]; other site 859656002039 G-X-G motif; other site 859656002040 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 859656002041 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 859656002042 active site 859656002043 phosphorylation site [posttranslational modification] 859656002044 intermolecular recognition site; other site 859656002045 dimerization interface [polypeptide binding]; other site 859656002046 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 859656002047 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 859656002048 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 859656002049 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 859656002050 tetramerization interface [polypeptide binding]; other site 859656002051 active site 859656002052 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 859656002053 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 859656002054 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656002055 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 859656002056 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 859656002057 N-terminal plug; other site 859656002058 ligand-binding site [chemical binding]; other site 859656002059 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 859656002060 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 859656002061 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 859656002062 putative substrate translocation pore; other site 859656002063 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 859656002064 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 859656002065 Helix-turn-helix domains; Region: HTH; cl00088 859656002066 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 859656002067 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_2; cd03675 859656002068 nudix motif; other site 859656002069 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 859656002070 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 859656002071 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 859656002072 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 859656002073 active site 859656002074 FMN binding site [chemical binding]; other site 859656002075 substrate binding site [chemical binding]; other site 859656002076 3Fe-4S cluster binding site [ion binding]; other site 859656002077 putative glutathione S-transferase; Provisional; Region: PRK10357 859656002078 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 859656002079 putative C-terminal domain interface [polypeptide binding]; other site 859656002080 putative GSH binding site (G-site) [chemical binding]; other site 859656002081 putative dimer interface [polypeptide binding]; other site 859656002082 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 859656002083 dimer interface [polypeptide binding]; other site 859656002084 N-terminal domain interface [polypeptide binding]; other site 859656002085 putative substrate binding pocket (H-site) [chemical binding]; other site 859656002086 adenylosuccinate lyase; Provisional; Region: PRK09285 859656002087 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 859656002088 tetramer interface [polypeptide binding]; other site 859656002089 active site 859656002090 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 859656002091 YceI-like domain; Region: YceI; cl01001 859656002092 YceI-like domain; Region: YceI; cl01001 859656002093 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 859656002094 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 859656002095 Protein export membrane protein; Region: SecD_SecF; cl14618 859656002096 SecD export protein N-terminal TM region; Region: SecD-TM1; cl08136 859656002097 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 859656002098 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 859656002099 Protein export membrane protein; Region: SecD_SecF; cl14618 859656002100 Preprotein translocase subunit; Region: YajC; cl00806 859656002101 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 859656002102 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 859656002103 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 859656002104 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 859656002105 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 859656002106 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 859656002107 generic binding surface II; other site 859656002108 ssDNA binding site; other site 859656002109 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 859656002110 ATP binding site [chemical binding]; other site 859656002111 putative Mg++ binding site [ion binding]; other site 859656002112 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 859656002113 nucleotide binding region [chemical binding]; other site 859656002114 ATP-binding site [chemical binding]; other site 859656002115 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 859656002116 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 859656002117 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes Similar to D-Serine Dehydratase and D-Threonine Aldolase, Unknown Group 1; Region: PLPDE_III_DSD_D-TA_like_1; cd06812 859656002118 dimer interface [polypeptide binding]; other site 859656002119 active site 859656002120 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 859656002121 substrate binding site [chemical binding]; other site 859656002122 catalytic residue [active] 859656002123 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859656002124 Helix-turn-helix domains; Region: HTH; cl00088 859656002125 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 859656002126 dimerization interface [polypeptide binding]; other site 859656002127 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : enzyme 859656002128 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 859656002129 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 859656002130 catalytic residue [active] 859656002131 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 859656002132 allantoate amidohydrolase; Reviewed; Region: PRK12890 859656002133 active site 859656002134 metal binding site [ion binding]; metal-binding site 859656002135 dimer interface [polypeptide binding]; other site 859656002136 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 859656002137 Helix-turn-helix domains; Region: HTH; cl00088 859656002138 AsnC family; Region: AsnC_trans_reg; pfam01037 859656002139 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 859656002140 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 859656002141 metal binding site [ion binding]; metal-binding site 859656002142 putative dimer interface [polypeptide binding]; other site 859656002143 Transcriptional regulators [Transcription]; Region: GntR; COG1802 859656002144 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 859656002145 DNA-binding site [nucleotide binding]; DNA binding site 859656002146 FCD domain; Region: FCD; cl11656 859656002147 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656002148 FAD dependent oxidoreductase; Region: DAO; pfam01266 859656002149 benzoate transport; Region: 2A0115; TIGR00895 859656002150 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 859656002151 putative substrate translocation pore; other site 859656002152 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 859656002153 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 859656002154 inhibitor site; inhibition site 859656002155 active site 859656002156 dimer interface [polypeptide binding]; other site 859656002157 catalytic residue [active] 859656002158 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 859656002159 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 859656002160 NAD(P) binding site [chemical binding]; other site 859656002161 catalytic residues [active] 859656002162 aromatic amino acid exporter; Provisional; Region: PRK11689 859656002163 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 859656002164 trimer interface [polypeptide binding]; other site 859656002165 eyelet of channel; other site 859656002166 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type e : enzyme 859656002167 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859656002168 Helix-turn-helix domains; Region: HTH; cl00088 859656002169 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 859656002170 dimerization interface [polypeptide binding]; other site 859656002171 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 859656002172 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 859656002173 dimerization interface [polypeptide binding]; other site 859656002174 DPS ferroxidase diiron center [ion binding]; other site 859656002175 ion pore; other site 859656002176 UbiA prenyltransferase family; Region: UbiA; cl00337 859656002177 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 859656002178 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656002179 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 859656002180 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 859656002181 catalytic residue [active] 859656002182 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 859656002183 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 859656002184 Walker A motif; other site 859656002185 ATP binding site [chemical binding]; other site 859656002186 Walker B motif; other site 859656002187 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 859656002188 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 859656002189 Walker A motif; other site 859656002190 ATP binding site [chemical binding]; other site 859656002191 Walker B motif; other site 859656002192 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 859656002193 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 859656002194 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 859656002195 Type II transport protein GspH; Region: GspH; pfam12019 859656002196 Tfp pilus assembly protein PilV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilV; COG4967 859656002197 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 859656002198 PilX N-terminal; Region: PilX_N; pfam14341 859656002199 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 859656002200 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 859656002201 catalytic residues [active] 859656002202 dimer interface [polypeptide binding]; other site 859656002203 Helix-turn-helix domains; Region: HTH; cl00088 859656002204 WYL domain; Region: WYL; cl14852 859656002205 Cupin domain; Region: Cupin_2; cl09118 859656002206 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 859656002207 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 859656002208 LrgB-like family; Region: LrgB; cl00596 859656002209 LrgA family; Region: LrgA; cl00608 859656002210 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 859656002211 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 859656002212 Cysteine-rich domain; Region: CCG; pfam02754 859656002213 Cysteine-rich domain; Region: CCG; pfam02754 859656002214 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 859656002215 FAD binding domain; Region: FAD_binding_4; pfam01565 859656002216 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 859656002217 FAD binding domain; Region: FAD_binding_4; pfam01565 859656002218 D-lactate dehydrogenase [cytochrome]; Region: PLN02805 859656002219 FAD binding domain; Region: FAD_binding_4; pfam01565 859656002220 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 859656002221 mechanosensitive channel MscS; Provisional; Region: PRK10334 859656002222 Mechanosensitive ion channel; Region: MS_channel; pfam00924 859656002223 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 859656002224 non-specific DNA binding site [nucleotide binding]; other site 859656002225 salt bridge; other site 859656002226 sequence-specific DNA binding site [nucleotide binding]; other site 859656002227 NeuB family; Region: NeuB; cl00496 859656002228 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 859656002229 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 859656002230 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 859656002231 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 859656002232 putative active site [active] 859656002233 catalytic triad [active] 859656002234 dimer interface [polypeptide binding]; other site 859656002235 Predicted membrane protein [Function unknown]; Region: COG3164 859656002236 AsmA-like C-terminal region; Region: AsmA_2; cl15864 859656002237 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 859656002238 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 859656002239 metal binding triad; other site 859656002240 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 859656002241 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 859656002242 metal binding triad; other site 859656002243 Rhomboid family; Region: Rhomboid; cl11446 859656002244 Peptidase S8 family domain, uncharacterized subfamily 13; Region: Peptidases_S8_13; cd07496 859656002245 active site 859656002246 catalytic triad [active] 859656002247 Peptidase S8 family domain, uncharacterized subfamily 13; Region: Peptidases_S8_13; cd07496 859656002248 active site 859656002249 catalytic triad [active] 859656002250 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 859656002251 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 859656002252 Walker A/P-loop; other site 859656002253 ATP binding site [chemical binding]; other site 859656002254 Q-loop/lid; other site 859656002255 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 859656002256 ABC transporter signature motif; other site 859656002257 Walker B; other site 859656002258 D-loop; other site 859656002259 H-loop/switch region; other site 859656002260 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 859656002261 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 859656002262 Helix-turn-helix domains; Region: HTH; cl00088 859656002263 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 859656002264 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 859656002265 DNA-binding site [nucleotide binding]; DNA binding site 859656002266 UTRA domain; Region: UTRA; cl01230 859656002267 urocanate hydratase; Provisional; Region: PRK05414 859656002268 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 859656002269 active sites [active] 859656002270 tetramer interface [polypeptide binding]; other site 859656002271 Arginase family; Region: Arginase; cl00306 859656002272 imidazolonepropionase; Validated; Region: PRK09356 859656002273 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 859656002274 active site 859656002275 ferrochelatase; Reviewed; Region: hemH; PRK00035 859656002276 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 859656002277 C-terminal domain interface [polypeptide binding]; other site 859656002278 active site 859656002279 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 859656002280 active site 859656002281 N-terminal domain interface [polypeptide binding]; other site 859656002282 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 859656002283 RNA binding surface [nucleotide binding]; other site 859656002284 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 859656002285 dimer interface [polypeptide binding]; other site 859656002286 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 859656002287 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 859656002288 catalytic residues [active] 859656002289 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 859656002290 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 859656002291 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 859656002292 chaperone protein DnaJ; Provisional; Region: PRK10767 859656002293 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 859656002294 HSP70 interaction site [polypeptide binding]; other site 859656002295 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 859656002296 Zn binding sites [ion binding]; other site 859656002297 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 859656002298 dimer interface [polypeptide binding]; other site 859656002299 chorismate binding enzyme; Region: Chorismate_bind; cl10555 859656002300 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; cd00449 859656002301 homodimer interface [polypeptide binding]; other site 859656002302 substrate-cofactor binding pocket; other site 859656002303 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859656002304 catalytic residue [active] 859656002305 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 859656002306 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 859656002307 Walker A/P-loop; other site 859656002308 ATP binding site [chemical binding]; other site 859656002309 Q-loop/lid; other site 859656002310 ABC transporter signature motif; other site 859656002311 Walker B; other site 859656002312 D-loop; other site 859656002313 H-loop/switch region; other site 859656002314 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 859656002315 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 859656002316 oligomerization interface [polypeptide binding]; other site 859656002317 active site 859656002318 metal binding site [ion binding]; metal-binding site 859656002319 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 859656002320 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 859656002321 Substrate-binding site [chemical binding]; other site 859656002322 Substrate specificity [chemical binding]; other site 859656002323 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 859656002324 catalytic center binding site [active] 859656002325 ATP binding site [chemical binding]; other site 859656002326 poly(A) polymerase; Region: pcnB; TIGR01942 859656002327 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 859656002328 active site 859656002329 NTP binding site [chemical binding]; other site 859656002330 metal binding triad [ion binding]; metal-binding site 859656002331 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 859656002332 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 859656002333 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 859656002334 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 859656002335 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 859656002336 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 859656002337 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 859656002338 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 859656002339 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 859656002340 dimerization interface [polypeptide binding]; other site 859656002341 putative ATP binding site [chemical binding]; other site 859656002342 Evidence 4 : Homologs of previously reported genes of unknown function 859656002343 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 859656002344 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 859656002345 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 859656002346 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 859656002347 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 859656002348 DNA binding site [nucleotide binding] 859656002349 active site 859656002350 Evidence 2b : Function of strongly homologous gene; PubMedId : 8376346; Product type e : enzyme 859656002351 Evidence 2b : Function of strongly homologous gene; PubMedId : 8376346; Product type e : enzyme 859656002352 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 859656002353 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 859656002354 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : enzyme 859656002355 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 859656002356 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 859656002357 Coenzyme A binding pocket [chemical binding]; other site 859656002358 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 859656002359 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 859656002360 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 859656002361 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 859656002362 ATP binding site [chemical binding]; other site 859656002363 Mg2+ binding site [ion binding]; other site 859656002364 G-X-G motif; other site 859656002365 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 859656002366 ATP binding site [chemical binding]; other site 859656002367 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 859656002368 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 859656002369 mce related protein; Region: MCE; pfam02470 859656002370 mce related protein; Region: MCE; pfam02470 859656002371 mce related protein; Region: MCE; pfam02470 859656002372 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 859656002373 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 859656002374 Helix-turn-helix domains; Region: HTH; cl00088 859656002375 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 859656002376 Uncharacterized conserved protein [Function unknown]; Region: COG2912 859656002377 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 859656002378 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 859656002379 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 859656002380 ornithine carbamoyltransferase; Provisional; Region: PRK00779 859656002381 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 859656002382 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656002383 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 859656002384 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 859656002385 Ligand Binding Site [chemical binding]; other site 859656002386 Protein of unknown function (DUF1255); Region: DUF1255; cl01202 859656002387 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 859656002388 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 859656002389 active site 859656002390 nucleophile elbow; other site 859656002391 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 859656002392 FAD binding domain; Region: FAD_binding_4; pfam01565 859656002393 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 859656002394 Protein of unknown function (DUF520); Region: DUF520; cl00723 859656002395 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 859656002396 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 859656002397 putative deacylase active site [active] 859656002398 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 859656002399 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 859656002400 active site 859656002401 DNA binding site [nucleotide binding] 859656002402 Int/Topo IB signature motif; other site 859656002403 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 859656002404 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 859656002405 DNA binding site [nucleotide binding] 859656002406 active site 859656002407 Evidence 4 : Homologs of previously reported genes of unknown function 859656002408 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 859656002409 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 859656002410 4Fe-4S binding domain; Region: Fer4; cl02805 859656002411 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 859656002412 AMIN domain; Region: AMIN; pfam11741 859656002413 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 859656002414 active site 859656002415 metal binding site [ion binding]; metal-binding site 859656002416 Membrane transport protein; Region: Mem_trans; cl09117 859656002417 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859656002418 Helix-turn-helix domains; Region: HTH; cl00088 859656002419 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 859656002420 putative dimerization interface [polypeptide binding]; other site 859656002421 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 859656002422 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 859656002423 NAD binding site [chemical binding]; other site 859656002424 homodimer interface [polypeptide binding]; other site 859656002425 homotetramer interface [polypeptide binding]; other site 859656002426 active site 859656002427 adenylate kinase; Reviewed; Region: adk; PRK00279 859656002428 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 859656002429 AMP-binding site [chemical binding]; other site 859656002430 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 859656002431 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 859656002432 Ligand binding site; other site 859656002433 oligomer interface; other site 859656002434 Trm112p-like protein; Region: Trm112p; cl01066 859656002435 tetraacyldisaccharide 4'-kinase; Provisional; Region: PRK01906 859656002436 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 859656002437 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 859656002438 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 859656002439 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 859656002440 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 859656002441 generic binding surface II; other site 859656002442 generic binding surface I; other site 859656002443 superoxide dismutase; Provisional; Region: PRK10543 859656002444 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 859656002445 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 859656002446 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 859656002447 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 859656002448 NAD(P) binding site [chemical binding]; other site 859656002449 homotetramer interface [polypeptide binding]; other site 859656002450 homodimer interface [polypeptide binding]; other site 859656002451 active site 859656002452 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_2; cd06160 859656002453 active site 859656002454 putative substrate binding region [chemical binding]; other site 859656002455 Protein of unknown function (DUF2167); Region: DUF2167; cl01938 859656002456 HutD; Region: HutD; cl01532 859656002457 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 859656002458 IHF dimer interface [polypeptide binding]; other site 859656002459 IHF - DNA interface [nucleotide binding]; other site 859656002460 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 859656002461 NAD binding site [chemical binding]; other site 859656002462 active site 859656002463 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 859656002464 citrate-proton symporter; Provisional; Region: PRK15075 859656002465 putative substrate translocation pore; other site 859656002466 Citrate transporter; Region: CitMHS; pfam03600 859656002467 NMT1-like family; Region: NMT1_2; cl15260 859656002468 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 859656002469 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 859656002470 dimer interface [polypeptide binding]; other site 859656002471 conserved gate region; other site 859656002472 putative PBP binding loops; other site 859656002473 ABC-ATPase subunit interface; other site 859656002474 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 859656002475 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 859656002476 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 859656002477 Zn2+ binding site [ion binding]; other site 859656002478 Mg2+ binding site [ion binding]; other site 859656002479 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 859656002480 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 859656002481 substrate binding pocket [chemical binding]; other site 859656002482 membrane-bound complex binding site; other site 859656002483 hinge residues; other site 859656002484 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 859656002485 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 859656002486 HipA N-terminal domain; Region: Couple_hipA; cl11853 859656002487 HipA-like N-terminal domain; Region: HipA_N; pfam07805 859656002488 HipA-like C-terminal domain; Region: HipA_C; pfam07804 859656002489 EamA-like transporter family; Region: EamA; cl01037 859656002490 EamA-like transporter family; Region: EamA; cl01037 859656002491 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 859656002492 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 859656002493 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 859656002494 DNA binding site [nucleotide binding] 859656002495 active site 859656002496 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 859656002497 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 859656002498 AlkA N-terminal domain; Region: AlkA_N; cl05528 859656002499 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 859656002500 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 859656002501 minor groove reading motif; other site 859656002502 helix-hairpin-helix signature motif; other site 859656002503 substrate binding pocket [chemical binding]; other site 859656002504 active site 859656002505 short chain dehydrogenase; Provisional; Region: PRK06123 859656002506 classical (c) SDRs; Region: SDR_c; cd05233 859656002507 NAD(P) binding site [chemical binding]; other site 859656002508 active site 859656002509 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; cl00988 859656002510 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 859656002511 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 859656002512 dimer interface [polypeptide binding]; other site 859656002513 active site 859656002514 catalytic residue [active] 859656002515 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 859656002516 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 859656002517 DoxX; Region: DoxX; cl00976 859656002518 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 859656002519 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 859656002520 putative substrate translocation pore; other site 859656002521 LysR family transcriptional regulator; Provisional; Region: PRK14997 859656002522 Helix-turn-helix domains; Region: HTH; cl00088 859656002523 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 859656002524 putative effector binding pocket; other site 859656002525 dimerization interface [polypeptide binding]; other site 859656002526 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 859656002527 Helix-turn-helix domains; Region: HTH; cl00088 859656002528 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 859656002529 dimerization interface [polypeptide binding]; other site 859656002530 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 859656002531 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 859656002532 Uncharacterized ACR, COG1430; Region: DUF192; cl00627 859656002533 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 859656002534 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 859656002535 active site 859656002536 metal binding site [ion binding]; metal-binding site 859656002537 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 859656002538 isocitrate dehydrogenase; Validated; Region: PRK07362 859656002539 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 859656002540 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 859656002541 RHS Repeat; Region: RHS_repeat; cl11982 859656002542 RHS Repeat; Region: RHS_repeat; cl11982 859656002543 RHS Repeat; Region: RHS_repeat; cl11982 859656002544 RHS Repeat; Region: RHS_repeat; cl11982 859656002545 RHS Repeat; Region: RHS_repeat; cl11982 859656002546 RHS Repeat; Region: RHS_repeat; cl11982 859656002547 RHS Repeat; Region: RHS_repeat; cl11982 859656002548 Evidence 4 : Homologs of previously reported genes of unknown function 859656002549 Evidence 4 : Homologs of previously reported genes of unknown function 859656002550 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 859656002551 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 859656002552 DNA-binding site [nucleotide binding]; DNA binding site 859656002553 RNA-binding motif; other site 859656002554 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 859656002555 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 859656002556 Clp amino terminal domain; Region: Clp_N; pfam02861 859656002557 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 859656002558 Walker A motif; other site 859656002559 ATP binding site [chemical binding]; other site 859656002560 Walker B motif; other site 859656002561 arginine finger; other site 859656002562 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 859656002563 Walker A motif; other site 859656002564 ATP binding site [chemical binding]; other site 859656002565 Walker B motif; other site 859656002566 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 859656002567 Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; PubMedId : 12369928; Product type e : enzyme 859656002568 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 859656002569 active site 859656002570 DNA binding site [nucleotide binding] 859656002571 Int/Topo IB signature motif; other site 859656002572 Protein of unknown function (DUF1250); Region: DUF1250; cl11485 859656002573 Evidence 4 : Homologs of previously reported genes of unknown function 859656002574 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 859656002575 AAA domain; Region: AAA_27; pfam13514 859656002576 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 859656002577 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 859656002578 active site 859656002579 metal binding site [ion binding]; metal-binding site 859656002580 DNA binding site [nucleotide binding] 859656002581 AAA domain; Region: AAA_13; pfam13166 859656002582 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 859656002583 ABC transporter signature motif; other site 859656002584 Walker B; other site 859656002585 D-loop; other site 859656002586 H-loop/switch region; other site 859656002587 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 859656002588 Protein of unknown function (DUF4011); Region: DUF4011; pfam13195 859656002589 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 859656002590 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 859656002591 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 859656002592 Family description; Region: UvrD_C_2; cl15862 859656002593 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 859656002594 putative active site [active] 859656002595 Protein of unknown function (DUF3320); Region: DUF3320; pfam11784 859656002596 Protein of unknown function (DUF4236); Region: DUF4236; pfam14020 859656002597 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 859656002598 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 859656002599 Protein of unknown function (DUF3644); Region: DUF3644; pfam12358 859656002600 DDE superfamily endonuclease; Region: DDE_4; cl15789 859656002601 DDE superfamily endonuclease; Region: DDE_4; cl15789 859656002602 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 859656002603 Evidence 2b : Function of strongly homologous gene; Product type cp : cell process 859656002604 Evidence 4 : Homologs of previously reported genes of unknown function 859656002605 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 859656002606 non-specific DNA binding site [nucleotide binding]; other site 859656002607 salt bridge; other site 859656002608 sequence-specific DNA binding site [nucleotide binding]; other site 859656002609 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 859656002610 trimer interface [polypeptide binding]; other site 859656002611 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 859656002612 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 859656002613 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 859656002614 Flavoprotein; Region: Flavoprotein; cl08021 859656002615 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 859656002616 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 859656002617 putative active site [active] 859656002618 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 859656002619 lipoprotein signal peptidase; Provisional; Region: PRK14787 859656002620 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 859656002621 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 859656002622 active site 859656002623 HIGH motif; other site 859656002624 nucleotide binding site [chemical binding]; other site 859656002625 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 859656002626 active site 859656002627 KMSKS motif; other site 859656002628 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 859656002629 tRNA binding surface [nucleotide binding]; other site 859656002630 anticodon binding site; other site 859656002631 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 859656002632 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 859656002633 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 859656002634 active site 859656002635 Riboflavin kinase; Region: Flavokinase; cl03312 859656002636 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 859656002637 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 859656002638 ATP binding site [chemical binding]; other site 859656002639 Mg2+ binding site [ion binding]; other site 859656002640 G-X-G motif; other site 859656002641 Response regulator receiver domain; Region: Response_reg; pfam00072 859656002642 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 859656002643 active site 859656002644 phosphorylation site [posttranslational modification] 859656002645 intermolecular recognition site; other site 859656002646 dimerization interface [polypeptide binding]; other site 859656002647 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 859656002648 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 859656002649 active site 859656002650 phosphorylation site [posttranslational modification] 859656002651 intermolecular recognition site; other site 859656002652 dimerization interface [polypeptide binding]; other site 859656002653 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 859656002654 DNA binding residues [nucleotide binding] 859656002655 dimerization interface [polypeptide binding]; other site 859656002656 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : regulator 859656002657 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 859656002658 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 859656002659 active site 859656002660 cosubstrate binding site; other site 859656002661 substrate binding site [chemical binding]; other site 859656002662 catalytic site [active] 859656002663 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 859656002664 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 859656002665 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 859656002666 PLD-like domain; Region: PLDc_2; pfam13091 859656002667 putative active site [active] 859656002668 catalytic site [active] 859656002669 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 859656002670 Mechanosensitive ion channel; Region: MS_channel; pfam00924 859656002671 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 859656002672 Di-iron ligands [ion binding]; other site 859656002673 Transposase; Region: DDE_Tnp_ISL3; pfam01610 859656002674 Quinolinate synthetase A protein; Region: NadA; cl00420 859656002675 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06978 859656002676 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 859656002677 dimerization interface [polypeptide binding]; other site 859656002678 active site 859656002679 L-aspartate oxidase; Provisional; Region: PRK09077 859656002680 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656002681 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 859656002682 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 859656002683 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 859656002684 hypothetical protein; Reviewed; Region: PRK00024 859656002685 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 859656002686 MPN+ (JAMM) motif; other site 859656002687 Zinc-binding site [ion binding]; other site 859656002688 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 859656002689 LytB protein; Region: LYTB; cl00507 859656002690 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 859656002691 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 859656002692 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 859656002693 dimerization interface [polypeptide binding]; other site 859656002694 ligand binding site [chemical binding]; other site 859656002695 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 859656002696 TM-ABC transporter signature motif; other site 859656002697 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 859656002698 TM-ABC transporter signature motif; other site 859656002699 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 859656002700 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 859656002701 Walker A/P-loop; other site 859656002702 ATP binding site [chemical binding]; other site 859656002703 Q-loop/lid; other site 859656002704 ABC transporter signature motif; other site 859656002705 Walker B; other site 859656002706 D-loop; other site 859656002707 H-loop/switch region; other site 859656002708 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 859656002709 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 859656002710 Walker A/P-loop; other site 859656002711 ATP binding site [chemical binding]; other site 859656002712 Q-loop/lid; other site 859656002713 ABC transporter signature motif; other site 859656002714 Walker B; other site 859656002715 D-loop; other site 859656002716 H-loop/switch region; other site 859656002717 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 859656002718 Coenzyme A binding pocket [chemical binding]; other site 859656002719 acetylornithine transaminase protein; Provisional; Region: argD; PRK03715 859656002720 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 859656002721 inhibitor-cofactor binding pocket; inhibition site 859656002722 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859656002723 catalytic residue [active] 859656002724 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 859656002725 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 859656002726 catalytic loop [active] 859656002727 iron binding site [ion binding]; other site 859656002728 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 859656002729 FAD binding pocket [chemical binding]; other site 859656002730 FAD binding motif [chemical binding]; other site 859656002731 phosphate binding motif [ion binding]; other site 859656002732 beta-alpha-beta structure motif; other site 859656002733 NAD binding pocket [chemical binding]; other site 859656002734 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656002735 NAD(P) binding site [chemical binding]; other site 859656002736 active site 859656002737 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 859656002738 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 859656002739 metal binding site [ion binding]; metal-binding site 859656002740 active site 859656002741 I-site; other site 859656002742 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 859656002743 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 859656002744 Cl- selectivity filter; other site 859656002745 Cl- binding residues [ion binding]; other site 859656002746 pore gating glutamate residue; other site 859656002747 dimer interface [polypeptide binding]; other site 859656002748 FOG: CBS domain [General function prediction only]; Region: COG0517 859656002749 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 859656002750 Helix-turn-helix domains; Region: HTH; cl00088 859656002751 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 859656002752 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656002753 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 859656002754 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 859656002755 putative ligand binding site [chemical binding]; other site 859656002756 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12684 859656002757 Helix-turn-helix domains; Region: HTH; cl00088 859656002758 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 859656002759 substrate binding site [chemical binding]; other site 859656002760 dimerization interface [polypeptide binding]; other site 859656002761 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 859656002762 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 859656002763 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 859656002764 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 859656002765 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 859656002766 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 859656002767 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 859656002768 Active Sites [active] 859656002769 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 859656002770 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 859656002771 Active Sites [active] 859656002772 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 859656002773 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 859656002774 CysD dimerization site [polypeptide binding]; other site 859656002775 G1 box; other site 859656002776 putative GEF interaction site [polypeptide binding]; other site 859656002777 GTP/Mg2+ binding site [chemical binding]; other site 859656002778 Switch I region; other site 859656002779 G2 box; other site 859656002780 G3 box; other site 859656002781 Switch II region; other site 859656002782 G4 box; other site 859656002783 G5 box; other site 859656002784 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 859656002785 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 859656002786 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 859656002787 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 859656002788 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 859656002789 putative substrate binding pocket [chemical binding]; other site 859656002790 trimer interface [polypeptide binding]; other site 859656002791 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 859656002792 putative active site [active] 859656002793 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 859656002794 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 859656002795 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 859656002796 multifunctional aminopeptidase A; Provisional; Region: PRK00913 859656002797 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 859656002798 interface (dimer of trimers) [polypeptide binding]; other site 859656002799 Substrate-binding/catalytic site; other site 859656002800 Zn-binding sites [ion binding]; other site 859656002801 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 859656002802 Dehydratase family; Region: ILVD_EDD; cl00340 859656002803 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 859656002804 Helix-turn-helix domains; Region: HTH; cl00088 859656002805 The C-terminal substrate binding domain of LysR-type transcriptional regulator, IlvR, involved in the biosynthesis of isoleucine, leucine and valine; contains type 2 periplasmic binding fold; Region: PBP2_IlvR; cd08453 859656002806 putative dimerization interface [polypeptide binding]; other site 859656002807 putative substrate binding pocket [chemical binding]; other site 859656002808 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 859656002809 Protein of unknown function (DUF541); Region: SIMPL; cl01077 859656002810 EVE domain; Region: EVE; cl00728 859656002811 Cell division protein ZapA; Region: ZapA; cl01146 859656002812 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 859656002813 Domain of unknown function (DUF1875); Region: DUF1875; pfam08961 859656002814 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 859656002815 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 859656002816 N-terminal plug; other site 859656002817 ligand-binding site [chemical binding]; other site 859656002818 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 859656002819 dimer interface [polypeptide binding]; other site 859656002820 putative PBP binding regions; other site 859656002821 ABC-ATPase subunit interface; other site 859656002822 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 859656002823 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 859656002824 Walker A/P-loop; other site 859656002825 ATP binding site [chemical binding]; other site 859656002826 Q-loop/lid; other site 859656002827 ABC transporter signature motif; other site 859656002828 Walker B; other site 859656002829 D-loop; other site 859656002830 H-loop/switch region; other site 859656002831 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 859656002832 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 859656002833 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 859656002834 putative dimer interface [polypeptide binding]; other site 859656002835 active site pocket [active] 859656002836 putative cataytic base [active] 859656002837 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 859656002838 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 859656002839 catalytic core [active] 859656002840 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 859656002841 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 859656002842 cobalamin binding residues [chemical binding]; other site 859656002843 putative BtuC binding residues; other site 859656002844 dimer interface [polypeptide binding]; other site 859656002845 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 859656002846 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 859656002847 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859656002848 homodimer interface [polypeptide binding]; other site 859656002849 catalytic residue [active] 859656002850 CobD/Cbib protein; Region: CobD_Cbib; cl00561 859656002851 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 859656002852 homotrimer interface [polypeptide binding]; other site 859656002853 Walker A motif; other site 859656002854 GTP binding site [chemical binding]; other site 859656002855 Walker B motif; other site 859656002856 cobyric acid synthase; Provisional; Region: PRK00784 859656002857 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 859656002858 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 859656002859 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 859656002860 catalytic triad [active] 859656002861 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 859656002862 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 859656002863 P-loop; other site 859656002864 Magnesium ion binding site [ion binding]; other site 859656002865 pantoate--beta-alanine ligase; Region: panC; TIGR00018 859656002866 Pantoate-beta-alanine ligase; Region: PanC; cd00560 859656002867 active site 859656002868 ATP-binding site [chemical binding]; other site 859656002869 pantoate-binding site; other site 859656002870 HXXH motif; other site 859656002871 ScpA/B protein; Region: ScpA_ScpB; cl00598 859656002872 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 859656002873 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 859656002874 Surface antigen; Region: Bac_surface_Ag; cl03097 859656002875 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 859656002876 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 859656002877 AsmA-like C-terminal region; Region: AsmA_2; cl15864 859656002878 Family of unknown function (DUF490); Region: DUF490; pfam04357 859656002879 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 859656002880 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 859656002881 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 859656002882 active site 859656002883 HIGH motif; other site 859656002884 KMSKS motif; other site 859656002885 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 859656002886 tRNA binding surface [nucleotide binding]; other site 859656002887 anticodon binding site; other site 859656002888 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 859656002889 dimer interface [polypeptide binding]; other site 859656002890 putative tRNA-binding site [nucleotide binding]; other site 859656002891 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 859656002892 ligand binding site [chemical binding]; other site 859656002893 antiporter inner membrane protein; Provisional; Region: PRK11670 859656002894 Domain of unknown function DUF59; Region: DUF59; cl00941 859656002895 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 859656002896 Walker A motif; other site 859656002897 Protein of unknown function (DUF3305); Region: DUF3305; pfam11749 859656002898 Protein of unknown function (DUF3306); Region: DUF3306; pfam11748 859656002899 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 859656002900 4Fe-4S binding domain; Region: Fer4; cl02805 859656002901 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 859656002902 4Fe-4S binding domain; Region: Fer4; cl02805 859656002903 formate hydrogenlyase complex iron-sulfur subunit; Provisional; Region: PRK12387 859656002904 4Fe-4S binding domain; Region: Fer4; cl02805 859656002905 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 859656002906 formate dehydrogenase region TAT target; Region: formate_TAT; TIGR02811 859656002907 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 859656002908 [4Fe-4S] binding site [ion binding]; other site 859656002909 molybdopterin cofactor binding site; other site 859656002910 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 859656002911 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 859656002912 molybdopterin cofactor binding site; other site 859656002913 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 859656002914 4Fe-4S binding domain; Region: Fer4; cl02805 859656002915 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 859656002916 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 859656002917 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 859656002918 E-class dimer interface [polypeptide binding]; other site 859656002919 P-class dimer interface [polypeptide binding]; other site 859656002920 active site 859656002921 Cu2+ binding site [ion binding]; other site 859656002922 Zn2+ binding site [ion binding]; other site 859656002923 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 859656002924 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 859656002925 trimer interface [polypeptide binding]; other site 859656002926 active site 859656002927 arginine decarboxylase; Provisional; Region: PRK15029 859656002928 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 859656002929 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 859656002930 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 859656002931 catalytic residue [active] 859656002932 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 859656002933 CRISPR/Cas system-associated protein Cas3''; Region: Cas3''_I; cd09641 859656002934 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 859656002935 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 859656002936 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cd09729 859656002937 CRISPR/Cas system-associated protein Cse2; Region: Cse2_I-E; cd09731 859656002938 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-E; cl09608 859656002939 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 859656002940 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-E; cd09645 859656002941 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cd09727 859656002942 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 859656002943 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I-E; cd09648 859656002944 argininosuccinate lyase; Provisional; Region: PRK00855 859656002945 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 859656002946 active sites [active] 859656002947 tetramer interface [polypeptide binding]; other site 859656002948 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5343 859656002949 Anti-sigma-K factor rskA; Region: RskA; pfam10099 859656002950 RNA polymerase sigma factor; Provisional; Region: PRK12514 859656002951 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 859656002952 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 859656002953 DNA binding residues [nucleotide binding] 859656002954 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 859656002955 dinuclear metal binding motif [ion binding]; other site 859656002956 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859656002957 Helix-turn-helix domains; Region: HTH; cl00088 859656002958 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 859656002959 dimerization interface [polypeptide binding]; other site 859656002960 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 859656002961 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 859656002962 putative substrate translocation pore; other site 859656002963 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl14656 859656002964 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 859656002965 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 859656002966 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; cd00494 859656002967 domain interfaces; other site 859656002968 active site 859656002969 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 859656002970 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 859656002971 active site 859656002972 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 859656002973 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 859656002974 HemY protein N-terminus; Region: HemY_N; pfam07219 859656002975 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 859656002976 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 859656002977 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 859656002978 D-galactonate transporter; Region: 2A0114; TIGR00893 859656002979 putative substrate translocation pore; other site 859656002980 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR), subgroup 3, classical (c) SDR; Region: BKR_3_SDR_c; cd05345 859656002981 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 859656002982 putative NAD(P) binding site [chemical binding]; other site 859656002983 active site 859656002984 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 859656002985 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 859656002986 NAD(P) binding site [chemical binding]; other site 859656002987 catalytic residues [active] 859656002988 catalytic residues [active] 859656002989 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 859656002990 dimer interface [polypeptide binding]; other site 859656002991 substrate binding site [chemical binding]; other site 859656002992 metal binding sites [ion binding]; metal-binding site 859656002993 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 859656002994 Protein of unknown function, DUF482; Region: DUF482; pfam04339 859656002995 NAD synthetase; Provisional; Region: PRK13981 859656002996 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 859656002997 multimer interface [polypeptide binding]; other site 859656002998 active site 859656002999 catalytic triad [active] 859656003000 protein interface 1 [polypeptide binding]; other site 859656003001 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 859656003002 homodimer interface [polypeptide binding]; other site 859656003003 NAD binding pocket [chemical binding]; other site 859656003004 ATP binding pocket [chemical binding]; other site 859656003005 Mg binding site [ion binding]; other site 859656003006 active-site loop [active] 859656003007 2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1, 4-benzoquinol methylase [Coenzyme metabolism]; Region: UbiG; COG2227 859656003008 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 859656003009 S-adenosylmethionine binding site [chemical binding]; other site 859656003010 Nitrogen regulatory protein P-II; Region: P-II; cl00412 859656003011 Nitrogen regulatory protein P-II; Region: P-II; smart00938 859656003012 Predicted membrane protein [Function unknown]; Region: COG2860 859656003013 UPF0126 domain; Region: UPF0126; pfam03458 859656003014 UPF0126 domain; Region: UPF0126; pfam03458 859656003015 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 859656003016 Smr domain; Region: Smr; cl02619 859656003017 thioredoxin reductase; Provisional; Region: PRK10262 859656003018 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 859656003019 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 859656003020 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 859656003021 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 859656003022 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 859656003023 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 859656003024 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 859656003025 AAA domain; Region: AAA_22; pfam13401 859656003026 Walker A motif; other site 859656003027 ATP binding site [chemical binding]; other site 859656003028 Walker B motif; other site 859656003029 recombination factor protein RarA; Reviewed; Region: PRK13342 859656003030 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 859656003031 Walker A motif; other site 859656003032 ATP binding site [chemical binding]; other site 859656003033 Walker B motif; other site 859656003034 arginine finger; other site 859656003035 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 859656003036 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 859656003037 Helix-turn-helix domains; Region: HTH; cl00088 859656003038 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656003039 NAD(P) binding site [chemical binding]; other site 859656003040 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 859656003041 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 859656003042 HTH-like domain; Region: HTH_21; pfam13276 859656003043 Integrase core domain; Region: rve; cl01316 859656003044 Integrase core domain; Region: rve_3; cl15866 859656003045 Helix-turn-helix domains; Region: HTH; cl00088 859656003046 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 859656003047 Helix-turn-helix domains; Region: HTH; cl00088 859656003048 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : enzyme 859656003049 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : enzyme 859656003050 seryl-tRNA synthetase; Provisional; Region: PRK05431 859656003051 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 859656003052 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 859656003053 dimer interface [polypeptide binding]; other site 859656003054 active site 859656003055 motif 1; other site 859656003056 motif 2; other site 859656003057 motif 3; other site 859656003058 Evidence 4 : Homologs of previously reported genes of unknown function 859656003059 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 859656003060 active site 859656003061 catalytic triad [active] 859656003062 calcium binding site [ion binding]; other site 859656003063 VirK protein; Region: VirK; pfam06903 859656003064 MltA-interacting protein MipA; Region: MipA; cl01504 859656003065 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 859656003066 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 859656003067 DNA binding residues [nucleotide binding] 859656003068 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 859656003069 Domain of unknown function DUF21; Region: DUF21; pfam01595 859656003070 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 859656003071 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 859656003072 Transporter associated domain; Region: CorC_HlyC; cl08393 859656003073 TM1410 hypothetical-related protein; Region: DUF297; cl00997 859656003074 C-terminal Putative NodB-like catalytic domain of PelA-like uncharacterized hypothetical proteins found in bacteria; Region: CE4_PelA_like_C; cd10922 859656003075 putative active site [active] 859656003076 Tetratricopeptide repeat; Region: TPR_15; pfam13429 859656003077 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 859656003078 GAF domain; Region: GAF; cl15785 859656003079 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 859656003080 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_3; cd03813 859656003081 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 859656003082 Predicted membrane protein [Function unknown]; Region: COG4267 859656003083 potential frameshift: common BLAST hit: gi|241664751|ref|YP_002983111.1| transposase mutator type 859656003084 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 859656003085 potential frameshift: common BLAST hit: gi|241664751|ref|YP_002983111.1| transposase mutator type 859656003086 MULE transposase domain; Region: MULE; pfam10551 859656003087 Transposase, Mutator family; Region: Transposase_mut; pfam00872 859656003088 Transposase, Mutator family; Region: Transposase_mut; pfam00872 859656003089 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 859656003090 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 859656003091 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 859656003092 substrate binding pocket [chemical binding]; other site 859656003093 membrane-bound complex binding site; other site 859656003094 hinge residues; other site 859656003095 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 859656003096 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 859656003097 Walker A/P-loop; other site 859656003098 ATP binding site [chemical binding]; other site 859656003099 Q-loop/lid; other site 859656003100 ABC transporter signature motif; other site 859656003101 Walker B; other site 859656003102 D-loop; other site 859656003103 H-loop/switch region; other site 859656003104 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 859656003105 dimer interface [polypeptide binding]; other site 859656003106 conserved gate region; other site 859656003107 putative PBP binding loops; other site 859656003108 ABC-ATPase subunit interface; other site 859656003109 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 859656003110 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 859656003111 dimer interface [polypeptide binding]; other site 859656003112 conserved gate region; other site 859656003113 putative PBP binding loops; other site 859656003114 ABC-ATPase subunit interface; other site 859656003115 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 859656003116 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 859656003117 substrate binding pocket [chemical binding]; other site 859656003118 membrane-bound complex binding site; other site 859656003119 hinge residues; other site 859656003120 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 859656003121 Helix-turn-helix domains; Region: HTH; cl00088 859656003122 Bacterial transcriptional regulator; Region: IclR; pfam01614 859656003123 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 859656003124 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 859656003125 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 859656003126 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 859656003127 dimer interface [polypeptide binding]; other site 859656003128 active site 859656003129 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 859656003130 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 859656003131 tetramer interface [polypeptide binding]; other site 859656003132 active site 859656003133 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 859656003134 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 859656003135 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 859656003136 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : transporter 859656003137 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 859656003138 Helix-turn-helix domains; Region: HTH; cl00088 859656003139 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 859656003140 substrate binding pocket [chemical binding]; other site 859656003141 dimerization interface [polypeptide binding]; other site 859656003142 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 859656003143 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656003144 TM1410 hypothetical-related protein; Region: DUF297; cl00997 859656003145 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 859656003146 rRNA binding site [nucleotide binding]; other site 859656003147 predicted 30S ribosome binding site; other site 859656003148 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 859656003149 active site 859656003150 tetramer interface; other site 859656003151 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 859656003152 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 859656003153 active site 859656003154 HIGH motif; other site 859656003155 nucleotide binding site [chemical binding]; other site 859656003156 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 859656003157 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 859656003158 active site 859656003159 KMSKS motif; other site 859656003160 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 859656003161 tRNA binding surface [nucleotide binding]; other site 859656003162 anticodon binding site; other site 859656003163 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 859656003164 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 859656003165 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 859656003166 Family description; Region: UvrD_C_2; cl15862 859656003167 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 859656003168 Phosphotransferase enzyme family; Region: APH; pfam01636 859656003169 putative active site [active] 859656003170 putative substrate binding site [chemical binding]; other site 859656003171 ATP binding site [chemical binding]; other site 859656003172 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 859656003173 DNA polymerase I; Provisional; Region: PRK05755 859656003174 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 859656003175 active site 859656003176 metal binding site 1 [ion binding]; metal-binding site 859656003177 putative 5' ssDNA interaction site; other site 859656003178 metal binding site 3; metal-binding site 859656003179 metal binding site 2 [ion binding]; metal-binding site 859656003180 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 859656003181 putative DNA binding site [nucleotide binding]; other site 859656003182 putative metal binding site [ion binding]; other site 859656003183 Macro domain, a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases). Some macro domains recognize poly...; Region: Macro; cl00019 859656003184 ADP-ribose binding site [chemical binding]; other site 859656003185 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 859656003186 active site 859656003187 catalytic site [active] 859656003188 substrate binding site [chemical binding]; other site 859656003189 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 859656003190 active site 859656003191 DNA binding site [nucleotide binding] 859656003192 catalytic site [active] 859656003193 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 859656003194 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 859656003195 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 859656003196 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 859656003197 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 859656003198 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 859656003199 active site residue [active] 859656003200 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 859656003201 active site residue [active] 859656003202 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 859656003203 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 859656003204 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 859656003205 [2Fe-2S] cluster binding site [ion binding]; other site 859656003206 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 859656003207 alpha subunit interface [polypeptide binding]; other site 859656003208 active site 859656003209 substrate binding site [chemical binding]; other site 859656003210 Fe binding site [ion binding]; other site 859656003211 Evidence 2b : Function of strongly homologous gene; Product type e : enzyme 859656003212 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 859656003213 substrate binding pocket [chemical binding]; other site 859656003214 chain length determination region; other site 859656003215 substrate-Mg2+ binding site; other site 859656003216 catalytic residues [active] 859656003217 aspartate-rich region 1; other site 859656003218 active site lid residues [active] 859656003219 aspartate-rich region 2; other site 859656003220 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 859656003221 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 859656003222 TPP-binding site; other site 859656003223 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 859656003224 PYR/PP interface [polypeptide binding]; other site 859656003225 dimer interface [polypeptide binding]; other site 859656003226 TPP binding site [chemical binding]; other site 859656003227 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 859656003228 Type I GTP cyclohydrolase folE2; Region: GCHY-1; cl00642 859656003229 UGMP family protein; Validated; Region: PRK09604 859656003230 HI0933-like protein; Region: HI0933_like; pfam03486 859656003231 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656003232 GatB domain; Region: GatB_Yqey; cl11497 859656003233 DNA primase; Validated; Region: dnaG; PRK05667 859656003234 CHC2 zinc finger; Region: zf-CHC2; cl15369 859656003235 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 859656003236 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 859656003237 active site 859656003238 metal binding site [ion binding]; metal-binding site 859656003239 interdomain interaction site; other site 859656003240 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 859656003241 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; cl07879 859656003242 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 859656003243 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 859656003244 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 859656003245 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 859656003246 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 859656003247 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 859656003248 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 859656003249 DNA binding residues [nucleotide binding] 859656003250 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 859656003251 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 859656003252 Helix-turn-helix domains; Region: HTH; cl00088 859656003253 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 859656003254 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 859656003255 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 859656003256 DEAD-like helicases superfamily; Region: DEXDc; smart00487 859656003257 ATP binding site [chemical binding]; other site 859656003258 Mg++ binding site [ion binding]; other site 859656003259 motif III; other site 859656003260 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 859656003261 nucleotide binding region [chemical binding]; other site 859656003262 ATP-binding site [chemical binding]; other site 859656003263 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 859656003264 active site 859656003265 HIGH motif; other site 859656003266 nucleotide binding site [chemical binding]; other site 859656003267 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 859656003268 active site 859656003269 KMSKS motif; other site 859656003270 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 859656003271 Helix-turn-helix domains; Region: HTH; cl00088 859656003272 The C-terminal substrate binding domain of LysR-type transcriptional regulator, HupR, which regulates expression of the heme uptake receptor HupA; contains the type 2 periplasmic binding fold; Region: PBP2_HupR; cd08431 859656003273 putative dimerization interface [polypeptide binding]; other site 859656003274 Pirin-related protein [General function prediction only]; Region: COG1741 859656003275 Cupin domain; Region: Cupin_2; cl09118 859656003276 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 859656003277 rhodanese superfamily protein; Provisional; Region: PRK05320 859656003278 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 859656003279 active site residue [active] 859656003280 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 859656003281 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 859656003282 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 859656003283 generic binding surface II; other site 859656003284 generic binding surface I; other site 859656003285 O-Antigen ligase; Region: Wzy_C; cl04850 859656003286 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 859656003287 active site 859656003288 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 859656003289 putative metal binding site; other site 859656003290 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : enzyme 859656003291 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : enzyme 859656003292 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 859656003293 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 859656003294 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 859656003295 Walker A/P-loop; other site 859656003296 ATP binding site [chemical binding]; other site 859656003297 Q-loop/lid; other site 859656003298 ABC transporter signature motif; other site 859656003299 Walker B; other site 859656003300 D-loop; other site 859656003301 H-loop/switch region; other site 859656003302 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 859656003303 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 859656003304 ribonuclease G; Provisional; Region: PRK11712 859656003305 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 859656003306 homodimer interface [polypeptide binding]; other site 859656003307 oligonucleotide binding site [chemical binding]; other site 859656003308 Maf-like protein; Region: Maf; pfam02545 859656003309 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 859656003310 active site 859656003311 dimer interface [polypeptide binding]; other site 859656003312 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 859656003313 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 859656003314 Oligomerisation domain; Region: Oligomerisation; cl00519 859656003315 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 859656003316 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 859656003317 active site 859656003318 (T/H)XGH motif; other site 859656003319 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 859656003320 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 859656003321 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 859656003322 ATP-grasp domain; Region: ATP-grasp_4; cl03087 859656003323 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 859656003324 Transcriptional regulator; Region: Transcrip_reg; cl00361 859656003325 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 859656003326 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 859656003327 Walker A motif; other site 859656003328 ATP binding site [chemical binding]; other site 859656003329 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 859656003330 active site 859656003331 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 859656003332 EamA-like transporter family; Region: EamA; cl01037 859656003333 EamA-like transporter family; Region: EamA; cl01037 859656003334 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 859656003335 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 859656003336 putative NAD(P) binding site [chemical binding]; other site 859656003337 putative active site [active] 859656003338 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 859656003339 active site 859656003340 dimer interfaces [polypeptide binding]; other site 859656003341 catalytic residues [active] 859656003342 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 859656003343 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 859656003344 NADP binding site [chemical binding]; other site 859656003345 dimer interface [polypeptide binding]; other site 859656003346 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 859656003347 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 859656003348 FeS/SAM binding site; other site 859656003349 Protein of unknown function (DUF4019); Region: DUF4019; pfam13211 859656003350 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 859656003351 putative ligand binding site [chemical binding]; other site 859656003352 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 859656003353 TM-ABC transporter signature motif; other site 859656003354 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 859656003355 TM-ABC transporter signature motif; other site 859656003356 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 859656003357 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 859656003358 Walker A/P-loop; other site 859656003359 ATP binding site [chemical binding]; other site 859656003360 Q-loop/lid; other site 859656003361 ABC transporter signature motif; other site 859656003362 Walker B; other site 859656003363 D-loop; other site 859656003364 H-loop/switch region; other site 859656003365 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 859656003366 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 859656003367 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 859656003368 putative substrate translocation pore; other site 859656003369 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 859656003370 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 859656003371 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 859656003372 Escherichia coli putative lactam utilization protein YbgL and similar proteins; Region: LamB_YcsF_YbgL_like; cd10800 859656003373 putative active site [active] 859656003374 Protein of unknown function (DUF969); Region: DUF969; cl01573 859656003375 Protein of unknown function (DUF979); Region: DUF979; cl01572 859656003376 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 859656003377 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 859656003378 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 859656003379 putative substrate binding pocket [chemical binding]; other site 859656003380 AC domain interface; other site 859656003381 catalytic triad [active] 859656003382 AB domain interface; other site 859656003383 interchain disulfide; other site 859656003384 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 859656003385 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 859656003386 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin 859656003387 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin 859656003388 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 859656003389 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 859656003390 active site 859656003391 Int/Topo IB signature motif; other site 859656003392 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 859656003393 Helix-turn-helix domain; Region: HTH_39; pfam14090 859656003394 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 859656003395 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 859656003396 FeS/SAM binding site; other site 859656003397 HemN C-terminal domain; Region: HemN_C; pfam06969 859656003398 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 859656003399 active site 859656003400 dimerization interface [polypeptide binding]; other site 859656003401 ribonuclease PH; Reviewed; Region: rph; PRK00173 859656003402 Ribonuclease PH; Region: RNase_PH_bact; cd11362 859656003403 hexamer interface [polypeptide binding]; other site 859656003404 active site 859656003405 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; cd00143 859656003406 active site 859656003407 Protein kinase domain; Region: Pkinase; pfam00069 859656003408 Catalytic domain of Protein Kinases; Region: PKc; cd00180 859656003409 active site 859656003410 ATP binding site [chemical binding]; other site 859656003411 substrate binding site [chemical binding]; other site 859656003412 activation loop (A-loop); other site 859656003413 hypothetical protein; Provisional; Region: PRK11820 859656003414 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 859656003415 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 859656003416 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 859656003417 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 859656003418 catalytic site [active] 859656003419 G-X2-G-X-G-K; other site 859656003420 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 859656003421 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 859656003422 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 859656003423 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 859656003424 synthetase active site [active] 859656003425 NTP binding site [chemical binding]; other site 859656003426 metal binding site [ion binding]; metal-binding site 859656003427 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 859656003428 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 859656003429 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 859656003430 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 859656003431 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 859656003432 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 859656003433 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 859656003434 BON domain; Region: BON; cl02771 859656003435 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 859656003436 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 859656003437 AMP binding site [chemical binding]; other site 859656003438 metal binding site [ion binding]; metal-binding site 859656003439 active site 859656003440 aminopeptidase N; Provisional; Region: pepN; PRK14015 859656003441 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 859656003442 active site 859656003443 Zn binding site [ion binding]; other site 859656003444 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 859656003445 malic enzyme; Reviewed; Region: PRK12862 859656003446 Malic enzyme, N-terminal domain; Region: malic; pfam00390 859656003447 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 859656003448 putative NAD(P) binding site [chemical binding]; other site 859656003449 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 859656003450 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 859656003451 eyelet of channel; other site 859656003452 trimer interface [polypeptide binding]; other site 859656003453 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 859656003454 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 859656003455 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 859656003456 active site 859656003457 catalytic site [active] 859656003458 tetramer interface [polypeptide binding]; other site 859656003459 xanthine permease; Region: pbuX; TIGR03173 859656003460 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 859656003461 Transcriptional regulators [Transcription]; Region: GntR; COG1802 859656003462 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 859656003463 DNA-binding site [nucleotide binding]; DNA binding site 859656003464 FCD domain; Region: FCD; cl11656 859656003465 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 859656003466 active site 859656003467 homotetramer interface [polypeptide binding]; other site 859656003468 Predicted membrane protein [Function unknown]; Region: COG3748 859656003469 Protein of unknown function (DUF989); Region: DUF989; pfam06181 859656003470 Cytochrome c; Region: Cytochrom_C; cl11414 859656003471 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 859656003472 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656003473 NAD(P) binding site [chemical binding]; other site 859656003474 active site 859656003475 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 859656003476 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 859656003477 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 859656003478 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 859656003479 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 859656003480 potential catalytic triad [active] 859656003481 conserved cys residue [active] 859656003482 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 859656003483 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 859656003484 putative NAD(P) binding site [chemical binding]; other site 859656003485 putative substrate binding site [chemical binding]; other site 859656003486 catalytic Zn binding site [ion binding]; other site 859656003487 structural Zn binding site [ion binding]; other site 859656003488 dimer interface [polypeptide binding]; other site 859656003489 Helix-turn-helix domains; Region: HTH; cl00088 859656003490 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_6; cd08475 859656003491 putative effector binding pocket; other site 859656003492 putative dimerization interface [polypeptide binding]; other site 859656003493 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 859656003494 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 859656003495 guanine deaminase; Provisional; Region: PRK09228 859656003496 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 859656003497 active site 859656003498 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 859656003499 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 859656003500 active site 859656003501 purine riboside binding site [chemical binding]; other site 859656003502 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 859656003503 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 859656003504 XdhC Rossmann domain; Region: XdhC_C; pfam13478 859656003505 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 859656003506 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 859656003507 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 859656003508 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 859656003509 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 859656003510 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 859656003511 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 859656003512 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859656003513 Helix-turn-helix domains; Region: HTH; cl00088 859656003514 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_4; cd08463 859656003515 putative substrate binding pocket [chemical binding]; other site 859656003516 putative dimerization interface [polypeptide binding]; other site 859656003517 ABC-type tungstate transport system, permease component [Coenzyme metabolism]; Region: TupB; COG2998 859656003518 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 859656003519 Helix-turn-helix domains; Region: HTH; cl00088 859656003520 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 859656003521 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 859656003522 FtsX-like permease family; Region: FtsX; cl15850 859656003523 FtsX-like permease family; Region: FtsX; cl15850 859656003524 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 859656003525 apolar tunnel; other site 859656003526 heme binding site [chemical binding]; other site 859656003527 dimerization interface [polypeptide binding]; other site 859656003528 Bacterial protein of unknown function (DUF924); Region: DUF924; cl01561 859656003529 LysE type translocator; Region: LysE; cl00565 859656003530 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 859656003531 Helix-turn-helix domains; Region: HTH; cl00088 859656003532 Bacterial transcriptional repressor; Region: TetR; pfam13972 859656003533 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 859656003534 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 859656003535 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 859656003536 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 859656003537 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 859656003538 putative active site [active] 859656003539 putative metal binding site [ion binding]; other site 859656003540 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 859656003541 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 859656003542 RDD family; Region: RDD; cl00746 859656003543 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 859656003544 Protein of unknown function (DUF3619); Region: DUF3619; pfam12279 859656003545 RNA polymerase factor sigma-70; Validated; Region: PRK09047 859656003546 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 859656003547 DNA binding residues [nucleotide binding] 859656003548 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 859656003549 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 859656003550 PYR/PP interface [polypeptide binding]; other site 859656003551 dimer interface [polypeptide binding]; other site 859656003552 TPP binding site [chemical binding]; other site 859656003553 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 859656003554 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 859656003555 TPP-binding site [chemical binding]; other site 859656003556 dimer interface [polypeptide binding]; other site 859656003557 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 859656003558 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 859656003559 putative valine binding site [chemical binding]; other site 859656003560 dimer interface [polypeptide binding]; other site 859656003561 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 859656003562 ketol-acid reductoisomerase; Provisional; Region: PRK05479 859656003563 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656003564 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 859656003565 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 859656003566 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 859656003567 2-isopropylmalate synthase; Validated; Region: PRK00915 859656003568 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 859656003569 active site 859656003570 catalytic residues [active] 859656003571 metal binding site [ion binding]; metal-binding site 859656003572 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 859656003573 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 859656003574 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 859656003575 putative ligand binding site [chemical binding]; other site 859656003576 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 859656003577 16S/18S rRNA binding site [nucleotide binding]; other site 859656003578 S13e-L30e interaction site [polypeptide binding]; other site 859656003579 25S rRNA binding site [nucleotide binding]; other site 859656003580 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 859656003581 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 859656003582 RNase E interface [polypeptide binding]; other site 859656003583 trimer interface [polypeptide binding]; other site 859656003584 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 859656003585 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 859656003586 RNase E interface [polypeptide binding]; other site 859656003587 trimer interface [polypeptide binding]; other site 859656003588 active site 859656003589 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 859656003590 putative nucleic acid binding region [nucleotide binding]; other site 859656003591 G-X-X-G motif; other site 859656003592 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 859656003593 RNA binding site [nucleotide binding]; other site 859656003594 domain interface; other site 859656003595 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 859656003596 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 859656003597 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 859656003598 NAD(P) binding site [chemical binding]; other site 859656003599 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 859656003600 substrate binding site [chemical binding]; other site 859656003601 dimer interface [polypeptide binding]; other site 859656003602 catalytic triad [active] 859656003603 Preprotein translocase SecG subunit; Region: SecG; cl09123 859656003604 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 859656003605 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 859656003606 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 859656003607 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 859656003608 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 859656003609 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 859656003610 NADH-quinone oxidoreductase, E subunit; Region: nuoE_fam; TIGR01958 859656003611 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 859656003612 putative dimer interface [polypeptide binding]; other site 859656003613 [2Fe-2S] cluster binding site [ion binding]; other site 859656003614 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 859656003615 SLBB domain; Region: SLBB; pfam10531 859656003616 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 859656003617 NADH dehydrogenase subunit G; Validated; Region: PRK09129 859656003618 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 859656003619 catalytic loop [active] 859656003620 iron binding site [ion binding]; other site 859656003621 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 859656003622 MopB_NDH-1_NuoG2: The second domain of the NuoG subunit of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1), found in beta- and gammaproteobacteria. The NDH-1 is the first energy-transducting complex in the respiratory chain and functions as...; Region: MopB_NDH-1_NuoG2; cd02772 859656003623 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 859656003624 NADH dehydrogenase; Region: NADHdh; cl00469 859656003625 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 859656003626 4Fe-4S binding domain; Region: Fer4; cl02805 859656003627 4Fe-4S binding domain; Region: Fer4; cl02805 859656003628 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 859656003629 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 859656003630 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 859656003631 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 859656003632 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 859656003633 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 859656003634 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 859656003635 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 859656003636 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 859656003637 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 859656003638 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 859656003639 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 859656003640 dimer interface [polypeptide binding]; other site 859656003641 ADP-ribose binding site [chemical binding]; other site 859656003642 active site 859656003643 nudix motif; other site 859656003644 metal binding site [ion binding]; metal-binding site 859656003645 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 859656003646 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 859656003647 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 859656003648 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 859656003649 FAD binding site [chemical binding]; other site 859656003650 substrate binding site [chemical binding]; other site 859656003651 catalytic base [active] 859656003652 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 859656003653 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 859656003654 active site 859656003655 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 859656003656 putative active site [active] 859656003657 putative catalytic site [active] 859656003658 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 859656003659 putative active site [active] 859656003660 putative catalytic site [active] 859656003661 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 859656003662 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 859656003663 putative ligand binding site [chemical binding]; other site 859656003664 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 859656003665 TM-ABC transporter signature motif; other site 859656003666 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 859656003667 TM-ABC transporter signature motif; other site 859656003668 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 859656003669 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 859656003670 Walker A/P-loop; other site 859656003671 ATP binding site [chemical binding]; other site 859656003672 Q-loop/lid; other site 859656003673 ABC transporter signature motif; other site 859656003674 Walker B; other site 859656003675 D-loop; other site 859656003676 H-loop/switch region; other site 859656003677 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 859656003678 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 859656003679 Walker A/P-loop; other site 859656003680 ATP binding site [chemical binding]; other site 859656003681 Q-loop/lid; other site 859656003682 ABC transporter signature motif; other site 859656003683 Walker B; other site 859656003684 D-loop; other site 859656003685 H-loop/switch region; other site 859656003686 UreD urease accessory protein; Region: UreD; cl00530 859656003687 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 859656003688 alpha-gamma subunit interface [polypeptide binding]; other site 859656003689 beta-gamma subunit interface [polypeptide binding]; other site 859656003690 HupE / UreJ protein; Region: HupE_UreJ; cl01011 859656003691 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 859656003692 gamma-beta subunit interface [polypeptide binding]; other site 859656003693 alpha-beta subunit interface [polypeptide binding]; other site 859656003694 urease subunit alpha; Reviewed; Region: ureC; PRK13207 859656003695 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 859656003696 subunit interactions [polypeptide binding]; other site 859656003697 active site 859656003698 flap region; other site 859656003699 urease accessory protein UreE; Provisional; Region: ureE; PRK13263 859656003700 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 859656003701 dimer interface [polypeptide binding]; other site 859656003702 catalytic residues [active] 859656003703 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 859656003704 UreF; Region: UreF; pfam01730 859656003705 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 859656003706 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 859656003707 This CD includes the dihydrorhizobitoxine fatty acid desaturase (RtxC) characterized in Bradyrhizobium japonicum USDA110, and other related proteins. Dihydrorhizobitoxine desaturase is reported to be involved in the final step of rhizobitoxine...; Region: Rhizobitoxine-FADS-like; cd03510 859656003708 putative di-iron ligands [ion binding]; other site 859656003709 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 859656003710 LysE type translocator; Region: LysE; cl00565 859656003711 Evidence 4 : Homologs of previously reported genes of unknown function 859656003712 Phospholipid methyltransferase; Region: PEMT; cl00763 859656003713 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 859656003714 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 859656003715 C-terminal domain interface [polypeptide binding]; other site 859656003716 GSH binding site (G-site) [chemical binding]; other site 859656003717 dimer interface [polypeptide binding]; other site 859656003718 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 859656003719 N-terminal domain interface [polypeptide binding]; other site 859656003720 putative dimer interface [polypeptide binding]; other site 859656003721 active site 859656003722 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 859656003723 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 859656003724 active site 859656003725 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 859656003726 CoenzymeA binding site [chemical binding]; other site 859656003727 subunit interaction site [polypeptide binding]; other site 859656003728 PHB binding site; other site 859656003729 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 859656003730 Helix-turn-helix domains; Region: HTH; cl00088 859656003731 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 859656003732 substrate binding pocket [chemical binding]; other site 859656003733 dimerization interface [polypeptide binding]; other site 859656003734 Predicted aminoglycoside phosphotransferase [General function prediction only]; Region: COG3173 859656003735 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This 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); Region: ACAD10_11_like; cd05154 859656003736 putative active site [active] 859656003737 putative substrate binding site [chemical binding]; other site 859656003738 ATP binding site [chemical binding]; other site 859656003739 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 859656003740 catalytic core [active] 859656003741 enoyl-CoA hydratase; Provisional; Region: PRK07511 859656003742 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 859656003743 substrate binding site [chemical binding]; other site 859656003744 oxyanion hole (OAH) forming residues; other site 859656003745 trimer interface [polypeptide binding]; other site 859656003746 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 859656003747 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656003748 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 859656003749 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 859656003750 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 859656003751 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 859656003752 C-terminal domain interface [polypeptide binding]; other site 859656003753 GSH binding site (G-site) [chemical binding]; other site 859656003754 dimer interface [polypeptide binding]; other site 859656003755 C-terminal, alpha helical domain of an unknown subfamily 9 of Glutathione S-transferases; Region: GST_C_9; cd10424 859656003756 putative N-terminal domain interface [polypeptide binding]; other site 859656003757 putative dimer interface [polypeptide binding]; other site 859656003758 putative substrate binding pocket (H-site) [chemical binding]; other site 859656003759 methionine aminotransferase; Validated; Region: PRK09082 859656003760 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 859656003761 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859656003762 homodimer interface [polypeptide binding]; other site 859656003763 catalytic residue [active] 859656003764 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 859656003765 Protein of unknown function (DUF328); Region: DUF328; cl01143 859656003766 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 859656003767 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 859656003768 putative active site [active] 859656003769 Zn binding site [ion binding]; other site 859656003770 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_2; cd08498 859656003771 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 859656003772 Protein of unknown function (DUF2863); Region: DUF2863; pfam11062 859656003773 aconitate hydratase; Provisional; Region: acnA; PRK12881 859656003774 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 859656003775 substrate binding site [chemical binding]; other site 859656003776 ligand binding site [chemical binding]; other site 859656003777 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 859656003778 substrate binding site [chemical binding]; other site 859656003779 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 859656003780 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 859656003781 Subgroup of Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS)...; Region: Ec2MCS_like_1; cd06117 859656003782 dimer interface [polypeptide binding]; other site 859656003783 active site 859656003784 citrylCoA binding site [chemical binding]; other site 859656003785 oxalacetate/citrate binding site [chemical binding]; other site 859656003786 coenzyme A binding site [chemical binding]; other site 859656003787 catalytic triad [active] 859656003788 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 859656003789 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 859656003790 tetramer interface [polypeptide binding]; other site 859656003791 active site 859656003792 Mg2+/Mn2+ binding site [ion binding]; other site 859656003793 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 859656003794 malate dehydrogenase; Provisional; Region: PRK05442 859656003795 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 859656003796 NAD(P) binding site [chemical binding]; other site 859656003797 dimer interface [polypeptide binding]; other site 859656003798 malate binding site [chemical binding]; other site 859656003799 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 859656003800 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 859656003801 DNA-binding site [nucleotide binding]; DNA binding site 859656003802 UTRA domain; Region: UTRA; cl01230 859656003803 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 859656003804 Iron-sulfur protein interface; other site 859656003805 proximal quinone binding site [chemical binding]; other site 859656003806 SdhD (CybS) interface [polypeptide binding]; other site 859656003807 proximal heme binding site [chemical binding]; other site 859656003808 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 859656003809 SdhC subunit interface [polypeptide binding]; other site 859656003810 proximal heme binding site [chemical binding]; other site 859656003811 cardiolipin binding site; other site 859656003812 Iron-sulfur protein interface; other site 859656003813 proximal quinone binding site [chemical binding]; other site 859656003814 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 859656003815 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656003816 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 859656003817 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 859656003818 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 859656003819 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 859656003820 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 859656003821 dimer interface [polypeptide binding]; other site 859656003822 Citrate synthase; Region: Citrate_synt; pfam00285 859656003823 active site 859656003824 citrylCoA binding site [chemical binding]; other site 859656003825 NADH binding [chemical binding]; other site 859656003826 cationic pore residues; other site 859656003827 oxalacetate/citrate binding site [chemical binding]; other site 859656003828 coenzyme A binding site [chemical binding]; other site 859656003829 catalytic triad [active] 859656003830 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 859656003831 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 859656003832 substrate binding site [chemical binding]; other site 859656003833 ligand binding site [chemical binding]; other site 859656003834 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 859656003835 substrate binding site [chemical binding]; other site 859656003836 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 859656003837 tartrate dehydrogenase; Provisional; Region: PRK08194 859656003838 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 859656003839 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656003840 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 859656003841 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 859656003842 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 859656003843 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 859656003844 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 859656003845 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 859656003846 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 859656003847 dimerization interface 3.5A [polypeptide binding]; other site 859656003848 active site 859656003849 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 859656003850 active site 859656003851 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 859656003852 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 859656003853 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859656003854 catalytic residue [active] 859656003855 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 859656003856 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 859656003857 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 859656003858 substrate binding site [chemical binding]; other site 859656003859 active site 859656003860 catalytic residues [active] 859656003861 heterodimer interface [polypeptide binding]; other site 859656003862 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 859656003863 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 859656003864 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 859656003865 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 859656003866 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 859656003867 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DedD; COG3147 859656003868 Sporulation related domain; Region: SPOR; cl10051 859656003869 Colicin V production protein; Region: Colicin_V; cl00567 859656003870 amidophosphoribosyltransferase; Provisional; Region: PRK09246 859656003871 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 859656003872 active site 859656003873 tetramer interface [polypeptide binding]; other site 859656003874 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 859656003875 active site 859656003876 ABC-2 type transporter; Region: ABC2_membrane; cl11417 859656003877 nodulation ABC transporter NodI; Provisional; Region: PRK13537 859656003878 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 859656003879 Walker A/P-loop; other site 859656003880 ATP binding site [chemical binding]; other site 859656003881 Q-loop/lid; other site 859656003882 ABC transporter signature motif; other site 859656003883 Walker B; other site 859656003884 D-loop; other site 859656003885 H-loop/switch region; other site 859656003886 Phasin protein; Region: Phasin_2; cl11491 859656003887 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 859656003888 putative active site [active] 859656003889 Domain of unknown function (DUF336); Region: DUF336; cl01249 859656003890 Hemin uptake protein hemP; Region: hemP; cl10043 859656003891 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 859656003892 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 859656003893 Gram-negative bacterial tonB protein; Region: TonB; cl10048 859656003894 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 859656003895 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 859656003896 Walker A motif; other site 859656003897 ATP binding site [chemical binding]; other site 859656003898 Walker B motif; other site 859656003899 arginine finger; other site 859656003900 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 859656003901 Walker A motif; other site 859656003902 ATP binding site [chemical binding]; other site 859656003903 Walker B motif; other site 859656003904 arginine finger; other site 859656003905 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 859656003906 dimerization interface [polypeptide binding]; other site 859656003907 putative DNA binding site [nucleotide binding]; other site 859656003908 putative Zn2+ binding site [ion binding]; other site 859656003909 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 859656003910 putative hydrophobic ligand binding site [chemical binding]; other site 859656003911 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_7; cd08900 859656003912 putative hydrophobic ligand binding site [chemical binding]; other site 859656003913 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 859656003914 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 859656003915 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 859656003916 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 859656003917 Fumarase C-terminus; Region: Fumerase_C; cl00795 859656003918 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 859656003919 acetyl-CoA synthetase; Provisional; Region: PRK00174 859656003920 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 859656003921 AMP-binding enzyme; Region: AMP-binding; cl15778 859656003922 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 859656003923 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 859656003924 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 859656003925 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 859656003926 Na binding site [ion binding]; other site 859656003927 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 859656003928 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 859656003929 dimerization interface [polypeptide binding]; other site 859656003930 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 859656003931 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 859656003932 dimer interface [polypeptide binding]; other site 859656003933 putative CheW interface [polypeptide binding]; other site 859656003934 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 859656003935 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 859656003936 transcriptional regulator EpsA; Region: EpsA; TIGR03020 859656003937 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 859656003938 DNA binding residues [nucleotide binding] 859656003939 dimerization interface [polypeptide binding]; other site 859656003940 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 859656003941 dimer interface [polypeptide binding]; other site 859656003942 putative CheW interface [polypeptide binding]; other site 859656003943 Cache domain; Region: Cache_1; pfam02743 859656003944 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 859656003945 metal binding site [ion binding]; metal-binding site 859656003946 active site 859656003947 I-site; other site 859656003948 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 859656003949 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 859656003950 DNA binding site [nucleotide binding] 859656003951 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 859656003952 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 859656003953 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 859656003954 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 859656003955 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 859656003956 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 859656003957 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 859656003958 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 859656003959 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 859656003960 Acyl-CoA thioester hydrolase/BAAT N-terminal region; Region: Bile_Hydr_Trans; pfam04775 859656003961 Esterase/lipase [General function prediction only]; Region: COG1647 859656003962 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 859656003963 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 859656003964 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_2; cd08498 859656003965 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 859656003966 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 859656003967 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 859656003968 Walker A/P-loop; other site 859656003969 ATP binding site [chemical binding]; other site 859656003970 Q-loop/lid; other site 859656003971 ABC transporter signature motif; other site 859656003972 Walker B; other site 859656003973 D-loop; other site 859656003974 H-loop/switch region; other site 859656003975 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 859656003976 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 859656003977 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 859656003978 Walker A/P-loop; other site 859656003979 ATP binding site [chemical binding]; other site 859656003980 Q-loop/lid; other site 859656003981 ABC transporter signature motif; other site 859656003982 Walker B; other site 859656003983 D-loop; other site 859656003984 H-loop/switch region; other site 859656003985 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 859656003986 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 859656003987 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 859656003988 dimer interface [polypeptide binding]; other site 859656003989 conserved gate region; other site 859656003990 putative PBP binding loops; other site 859656003991 ABC-ATPase subunit interface; other site 859656003992 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 859656003993 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 859656003994 dimer interface [polypeptide binding]; other site 859656003995 conserved gate region; other site 859656003996 putative PBP binding loops; other site 859656003997 ABC-ATPase subunit interface; other site 859656003998 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 859656003999 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656004000 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859656004001 Helix-turn-helix domains; Region: HTH; cl00088 859656004002 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 859656004003 dimerization interface [polypeptide binding]; other site 859656004004 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 859656004005 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 859656004006 putative ligand binding site [chemical binding]; other site 859656004007 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 859656004008 Cupin domain; Region: Cupin_2; cl09118 859656004009 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 859656004010 nudix motif; other site 859656004011 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 859656004012 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 859656004013 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 859656004014 putative active site [active] 859656004015 putative substrate binding site [chemical binding]; other site 859656004016 putative cosubstrate binding site; other site 859656004017 catalytic site [active] 859656004018 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 859656004019 active site 859656004020 catalytic site [active] 859656004021 substrate binding site [chemical binding]; other site 859656004022 integrase; Provisional; Region: PRK09692 859656004023 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 859656004024 active site 859656004025 Int/Topo IB signature motif; other site 859656004026 Afadin- and alpha -actinin-Binding; Region: ADIP; pfam11559 859656004027 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 859656004028 Helix-turn-helix domain; Region: HTH_39; pfam14090 859656004029 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 859656004030 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 859656004031 active site 859656004032 metal binding site [ion binding]; metal-binding site 859656004033 interdomain interaction site; other site 859656004034 Protein of unknown function (DUF3631); Region: DUF3631; pfam12307 859656004035 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 859656004036 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 859656004037 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 859656004038 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin 859656004039 Protein of unknown function (DUF3761); Region: DUF3761; pfam12587 859656004040 Excisionase-like protein; Region: Exc; pfam07825 859656004041 Common central domain of tyrosinase; Region: Tyrosinase; pfam00264 859656004042 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 859656004043 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 859656004044 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 859656004045 Ligand Binding Site [chemical binding]; other site 859656004046 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 859656004047 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 859656004048 putative NAD(P) binding site [chemical binding]; other site 859656004049 putative substrate binding site [chemical binding]; other site 859656004050 catalytic Zn binding site [ion binding]; other site 859656004051 structural Zn binding site [ion binding]; other site 859656004052 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 859656004053 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 859656004054 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 859656004055 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 859656004056 RNA/DNA hybrid binding site [nucleotide binding]; other site 859656004057 active site 859656004058 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 859656004059 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 859656004060 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 859656004061 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 859656004062 N-acetyl-D-glucosamine binding site [chemical binding]; other site 859656004063 catalytic residue [active] 859656004064 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 859656004065 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 859656004066 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 859656004067 AMP-binding enzyme; Region: AMP-binding; cl15778 859656004068 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 859656004069 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 859656004070 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 859656004071 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 859656004072 catalytic site [active] 859656004073 subunit interface [polypeptide binding]; other site 859656004074 LysE type translocator; Region: LysE; cl00565 859656004075 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 859656004076 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 859656004077 ATP-grasp domain; Region: ATP-grasp_4; cl03087 859656004078 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 859656004079 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 859656004080 ATP-grasp domain; Region: ATP-grasp_4; cl03087 859656004081 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 859656004082 IMP binding site; other site 859656004083 dimer interface [polypeptide binding]; other site 859656004084 interdomain contacts; other site 859656004085 partial ornithine binding site; other site 859656004086 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 859656004087 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 859656004088 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 859656004089 Evidence 4 : Homologs of previously reported genes of unknown function 859656004090 Evidence 4 : Homologs of previously reported genes of unknown function 859656004091 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 859656004092 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 859656004093 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 859656004094 FtsH Extracellular; Region: FtsH_ext; pfam06480 859656004095 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 859656004096 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 859656004097 Walker A motif; other site 859656004098 ATP binding site [chemical binding]; other site 859656004099 Walker B motif; other site 859656004100 arginine finger; other site 859656004101 Peptidase family M41; Region: Peptidase_M41; pfam01434 859656004102 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 859656004103 dihydropteroate synthase; Region: DHPS; TIGR01496 859656004104 substrate binding pocket [chemical binding]; other site 859656004105 dimer interface [polypeptide binding]; other site 859656004106 inhibitor binding site; inhibition site 859656004107 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 859656004108 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 859656004109 active site 859656004110 substrate binding site [chemical binding]; other site 859656004111 metal binding site [ion binding]; metal-binding site 859656004112 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 859656004113 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 859656004114 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 859656004115 dimer interface [polypeptide binding]; other site 859656004116 conserved gate region; other site 859656004117 putative PBP binding loops; other site 859656004118 ABC-ATPase subunit interface; other site 859656004119 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 859656004120 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 859656004121 dimer interface [polypeptide binding]; other site 859656004122 conserved gate region; other site 859656004123 putative PBP binding loops; other site 859656004124 ABC-ATPase subunit interface; other site 859656004125 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 859656004126 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 859656004127 Walker A/P-loop; other site 859656004128 ATP binding site [chemical binding]; other site 859656004129 Q-loop/lid; other site 859656004130 ABC transporter signature motif; other site 859656004131 Walker B; other site 859656004132 D-loop; other site 859656004133 H-loop/switch region; other site 859656004134 transcriptional regulator PhoU; Provisional; Region: PRK11115 859656004135 PhoU domain; Region: PhoU; pfam01895 859656004136 PhoU domain; Region: PhoU; pfam01895 859656004137 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 859656004138 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 859656004139 active site 859656004140 phosphorylation site [posttranslational modification] 859656004141 intermolecular recognition site; other site 859656004142 dimerization interface [polypeptide binding]; other site 859656004143 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 859656004144 DNA binding site [nucleotide binding] 859656004145 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 859656004146 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 859656004147 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 859656004148 dimer interface [polypeptide binding]; other site 859656004149 phosphorylation site [posttranslational modification] 859656004150 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 859656004151 ATP binding site [chemical binding]; other site 859656004152 Mg2+ binding site [ion binding]; other site 859656004153 G-X-G motif; other site 859656004154 polyphosphate kinase 1; Region: poly_P_kin; TIGR03705 859656004155 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 859656004156 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 859656004157 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 859656004158 putative domain interface [polypeptide binding]; other site 859656004159 putative active site [active] 859656004160 catalytic site [active] 859656004161 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 859656004162 putative domain interface [polypeptide binding]; other site 859656004163 putative active site [active] 859656004164 catalytic site [active] 859656004165 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 859656004166 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 859656004167 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 859656004168 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 859656004169 catalytic core [active] 859656004170 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 859656004171 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 859656004172 dimerization interface [polypeptide binding]; other site 859656004173 putative DNA binding site [nucleotide binding]; other site 859656004174 putative Zn2+ binding site [ion binding]; other site 859656004175 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 859656004176 Predicted signal transduction protein containing a membrane domain, an EAL and a GGDEF domain [Signal transduction mechanisms]; Region: COG5001 859656004177 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 859656004178 metal binding site [ion binding]; metal-binding site 859656004179 active site 859656004180 I-site; other site 859656004181 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 859656004182 Protein kinase domain; Region: Pkinase; pfam00069 859656004183 Catalytic domain of Protein Kinases; Region: PKc; cd00180 859656004184 active site 859656004185 ATP binding site [chemical binding]; other site 859656004186 substrate binding site [chemical binding]; other site 859656004187 activation loop (A-loop); other site 859656004188 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : enzyme 859656004189 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : enzyme 859656004190 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 859656004191 Ligand Binding Site [chemical binding]; other site 859656004192 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 859656004193 FOG: CBS domain [General function prediction only]; Region: COG0517 859656004194 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_9; cd04622 859656004195 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 859656004196 Ligand Binding Site [chemical binding]; other site 859656004197 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 859656004198 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 859656004199 ligand binding site [chemical binding]; other site 859656004200 flexible hinge region; other site 859656004201 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 859656004202 putative switch regulator; other site 859656004203 non-specific DNA interactions [nucleotide binding]; other site 859656004204 DNA binding site [nucleotide binding] 859656004205 sequence specific DNA binding site [nucleotide binding]; other site 859656004206 putative cAMP binding site [chemical binding]; other site 859656004207 PAS domain S-box; Region: sensory_box; TIGR00229 859656004208 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 859656004209 putative active site [active] 859656004210 heme pocket [chemical binding]; other site 859656004211 Histidine kinase; Region: HisKA_3; pfam07730 859656004212 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 859656004213 ATP binding site [chemical binding]; other site 859656004214 Mg2+ binding site [ion binding]; other site 859656004215 G-X-G motif; other site 859656004216 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 859656004217 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 859656004218 active site 859656004219 phosphorylation site [posttranslational modification] 859656004220 intermolecular recognition site; other site 859656004221 dimerization interface [polypeptide binding]; other site 859656004222 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 859656004223 DNA binding residues [nucleotide binding] 859656004224 dimerization interface [polypeptide binding]; other site 859656004225 Insecticide toxin TcdB middle/C-terminal region; Region: TcdB_toxin_midC; pfam12255 859656004226 hypothetical protein; Validated; Region: PRK09169 859656004227 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 859656004228 metal binding triad [ion binding]; metal-binding site 859656004229 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 859656004230 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 859656004231 mce related protein; Region: MCE; pfam02470 859656004232 mce related protein; Region: MCE; pfam02470 859656004233 mce related protein; Region: MCE; pfam02470 859656004234 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 859656004235 Helix-turn-helix domains; Region: HTH; cl00088 859656004236 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4727 859656004237 Uncharacterized protein conserved in bacteria (DUF2145); Region: DUF2145; pfam09916 859656004238 Predicted phosphohydrolases [General function prediction only]; Region: COG1408 859656004239 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 859656004240 putative active site [active] 859656004241 putative metal binding site [ion binding]; other site 859656004242 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 859656004243 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 859656004244 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 859656004245 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 859656004246 Helix-turn-helix domains; Region: HTH; cl00088 859656004247 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 859656004248 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 859656004249 FAD binding domain; Region: FAD_binding_4; pfam01565 859656004250 Predicted membrane protein (DUF2069); Region: DUF2069; cl01299 859656004251 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 859656004252 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 859656004253 Protein of unknown function (DUF962); Region: DUF962; cl01879 859656004254 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 859656004255 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 859656004256 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 859656004257 nucleophilic elbow; other site 859656004258 catalytic triad; other site 859656004259 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK08134 859656004260 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 859656004261 homodimer interface [polypeptide binding]; other site 859656004262 substrate-cofactor binding pocket; other site 859656004263 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859656004264 catalytic residue [active] 859656004265 FOG: CBS domain [General function prediction only]; Region: COG0517 859656004266 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_12; cd04625 859656004267 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 859656004268 putative substrate translocation pore; other site 859656004269 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 859656004270 putative acyl-acceptor binding pocket; other site 859656004271 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 859656004272 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 859656004273 Tetramer interface [polypeptide binding]; other site 859656004274 active site 859656004275 FMN-binding site [chemical binding]; other site 859656004276 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656004277 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 859656004278 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 859656004279 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 859656004280 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 859656004281 classical (c) SDRs; Region: SDR_c; cd05233 859656004282 NAD(P) binding site [chemical binding]; other site 859656004283 active site 859656004284 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 859656004285 PAS domain; Region: PAS_9; pfam13426 859656004286 transcriptional regulator EpsA; Region: EpsA; TIGR03020 859656004287 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 859656004288 DNA binding residues [nucleotide binding] 859656004289 dimerization interface [polypeptide binding]; other site 859656004290 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 859656004291 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 859656004292 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656004293 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 859656004294 NAD(P) binding site [chemical binding]; other site 859656004295 active site 859656004296 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 859656004297 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 859656004298 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 859656004299 homotrimer interaction site [polypeptide binding]; other site 859656004300 putative active site [active] 859656004301 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 859656004302 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 859656004303 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 859656004304 synthetase active site [active] 859656004305 NTP binding site [chemical binding]; other site 859656004306 metal binding site [ion binding]; metal-binding site 859656004307 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 859656004308 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 859656004309 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 859656004310 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 859656004311 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 859656004312 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 859656004313 active site 859656004314 dimer interface [polypeptide binding]; other site 859656004315 motif 1; other site 859656004316 motif 2; other site 859656004317 motif 3; other site 859656004318 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 859656004319 anticodon binding site; other site 859656004320 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 859656004321 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 859656004322 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 859656004323 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 859656004324 ribosomal protein L20; Region: rpl20; CHL00068 859656004325 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 859656004326 23S rRNA binding site [nucleotide binding]; other site 859656004327 L21 binding site [polypeptide binding]; other site 859656004328 L13 binding site [polypeptide binding]; other site 859656004329 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 859656004330 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 859656004331 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 859656004332 dimer interface [polypeptide binding]; other site 859656004333 motif 1; other site 859656004334 active site 859656004335 motif 2; other site 859656004336 motif 3; other site 859656004337 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 859656004338 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 859656004339 putative tRNA-binding site [nucleotide binding]; other site 859656004340 B3/4 domain; Region: B3_4; cl11458 859656004341 tRNA synthetase B5 domain; Region: B5; cl08394 859656004342 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 859656004343 dimer interface [polypeptide binding]; other site 859656004344 motif 1; other site 859656004345 motif 3; other site 859656004346 motif 2; other site 859656004347 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 859656004348 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 859656004349 IHF dimer interface [polypeptide binding]; other site 859656004350 IHF - DNA interface [nucleotide binding]; other site 859656004351 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 859656004352 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 859656004353 DNA binding residues [nucleotide binding] 859656004354 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 859656004355 INT_SG2, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 2, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinases and phage-related integrases. Some have N-terminal domains, which show little sequence...; Region: INT_SG2_C; cd01184 859656004356 Int/Topo IB signature motif; other site 859656004357 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 859656004358 RHS Repeat; Region: RHS_repeat; cl11982 859656004359 RHS Repeat; Region: RHS_repeat; cl11982 859656004360 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 859656004361 potential frameshift: common BLAST hit: gi|17548306|ref|NP_521646.1| RHS-related protein 859656004362 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 859656004363 RHS Repeat; Region: RHS_repeat; cl11982 859656004364 RHS Repeat; Region: RHS_repeat; cl11982 859656004365 RHS Repeat; Region: RHS_repeat; cl11982 859656004366 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 859656004367 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 859656004368 RHS Repeat; Region: RHS_repeat; cl11982 859656004369 RHS Repeat; Region: RHS_repeat; cl11982 859656004370 RHS Repeat; Region: RHS_repeat; cl11982 859656004371 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 859656004372 catalytic residues [active] 859656004373 catalytic nucleophile [active] 859656004374 Presynaptic Site I dimer interface [polypeptide binding]; other site 859656004375 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 859656004376 Synaptic Flat tetramer interface [polypeptide binding]; other site 859656004377 Synaptic Site I dimer interface [polypeptide binding]; other site 859656004378 DNA binding site [nucleotide binding] 859656004379 Transposase, Mutator family; Region: Transposase_mut; pfam00872 859656004380 MULE transposase domain; Region: MULE; pfam10551 859656004381 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 859656004382 Aldose 1-epimerase, similar to Synechocystis Slr1438; Region: Aldose_epim_Slr1438; cd09025 859656004383 active site 859656004384 catalytic residues [active] 859656004385 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 859656004386 active site 859656004387 DNA polymerase IV; Validated; Region: PRK02406 859656004388 DNA binding site [nucleotide binding] 859656004389 amino acid transporter; Region: 2A0306; TIGR00909 859656004390 Spore germination protein; Region: Spore_permease; cl15802 859656004391 Spore germination protein; Region: Spore_permease; cl15802 859656004392 Protein of unknown function (DUF1223); Region: DUF1223; cl10501 859656004393 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 859656004394 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 859656004395 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 859656004396 Helix-turn-helix domains; Region: HTH; cl00088 859656004397 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 859656004398 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 859656004399 putative catalytic site [active] 859656004400 putative phosphate binding site [ion binding]; other site 859656004401 active site 859656004402 metal binding site A [ion binding]; metal-binding site 859656004403 DNA binding site [nucleotide binding] 859656004404 putative AP binding site [nucleotide binding]; other site 859656004405 putative metal binding site B [ion binding]; other site 859656004406 cytosine deaminase; Validated; Region: PRK07572 859656004407 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 859656004408 active site 859656004409 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 859656004410 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 859656004411 active site 859656004412 Zn binding site [ion binding]; other site 859656004413 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 859656004414 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 859656004415 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 859656004416 homodimer interface [polypeptide binding]; other site 859656004417 NADP binding site [chemical binding]; other site 859656004418 substrate binding site [chemical binding]; other site 859656004419 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 859656004420 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 859656004421 active site 859656004422 phosphorylation site [posttranslational modification] 859656004423 intermolecular recognition site; other site 859656004424 dimerization interface [polypeptide binding]; other site 859656004425 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 859656004426 DNA binding residues [nucleotide binding] 859656004427 dimerization interface [polypeptide binding]; other site 859656004428 PAS domain S-box; Region: sensory_box; TIGR00229 859656004429 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 859656004430 putative active site [active] 859656004431 heme pocket [chemical binding]; other site 859656004432 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 859656004433 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 859656004434 dimer interface [polypeptide binding]; other site 859656004435 phosphorylation site [posttranslational modification] 859656004436 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 859656004437 ATP binding site [chemical binding]; other site 859656004438 Mg2+ binding site [ion binding]; other site 859656004439 G-X-G motif; other site 859656004440 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 859656004441 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 859656004442 dimer interface [polypeptide binding]; other site 859656004443 TPP-binding site [chemical binding]; other site 859656004444 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 859656004445 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 859656004446 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 859656004447 E3 interaction surface; other site 859656004448 lipoyl attachment site [posttranslational modification]; other site 859656004449 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 859656004450 E3 interaction surface; other site 859656004451 lipoyl attachment site [posttranslational modification]; other site 859656004452 e3 binding domain; Region: E3_binding; pfam02817 859656004453 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 859656004454 proteasome_protease_HslV. This group contains the eukaryotic proteosome alpha and beta subunits and the prokaryotic protease hslV subunit. Proteasomes are large multimeric self-compartmentalizing proteases, involved in the clearance of misfolded proteins; Region: proteasome_protease_HslV; cd01906 859656004455 active site 859656004456 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 859656004457 E3 interaction surface; other site 859656004458 lipoyl attachment site [posttranslational modification]; other site 859656004459 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 859656004460 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 859656004461 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 859656004462 Phasin protein; Region: Phasin_2; cl11491 859656004463 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 859656004464 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 859656004465 EamA-like transporter family; Region: EamA; cl01037 859656004466 EamA-like transporter family; Region: EamA; cl01037 859656004467 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 859656004468 active site 859656004469 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 859656004470 putative FMN binding site [chemical binding]; other site 859656004471 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 859656004472 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 859656004473 Transcriptional regulator [Transcription]; Region: IclR; COG1414 859656004474 Helix-turn-helix domains; Region: HTH; cl00088 859656004475 Bacterial transcriptional regulator; Region: IclR; pfam01614 859656004476 Cysteine-rich domain; Region: CCG; pfam02754 859656004477 Cysteine-rich domain; Region: CCG; pfam02754 859656004478 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 859656004479 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 859656004480 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 859656004481 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 859656004482 TM2 domain; Region: TM2; cl00984 859656004483 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 859656004484 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 859656004485 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 859656004486 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 859656004487 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 859656004488 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_4; cd04511 859656004489 nudix motif; other site 859656004490 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 859656004491 quinone interaction residues [chemical binding]; other site 859656004492 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 859656004493 active site 859656004494 catalytic residues [active] 859656004495 FMN binding site [chemical binding]; other site 859656004496 substrate binding site [chemical binding]; other site 859656004497 K+ potassium transporter; Region: K_trans; cl15781 859656004498 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 859656004499 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 859656004500 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 859656004501 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 859656004502 RNA binding site [nucleotide binding]; other site 859656004503 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 859656004504 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 859656004505 DEAD_2; Region: DEAD_2; pfam06733 859656004506 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 859656004507 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 859656004508 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 859656004509 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; cl09940 859656004510 RNA binding surface [nucleotide binding]; other site 859656004511 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 859656004512 active site 859656004513 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 859656004514 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 859656004515 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 859656004516 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 859656004517 putative acyltransferase; Provisional; Region: PRK05790 859656004518 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 859656004519 dimer interface [polypeptide binding]; other site 859656004520 active site 859656004521 acetyacetyl-CoA reductase; Provisional; Region: PRK12938 859656004522 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 859656004523 NAD(P) binding site [chemical binding]; other site 859656004524 homotetramer interface [polypeptide binding]; other site 859656004525 homodimer interface [polypeptide binding]; other site 859656004526 active site 859656004527 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 859656004528 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 859656004529 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 859656004530 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 859656004531 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 859656004532 FMN binding site [chemical binding]; other site 859656004533 active site 859656004534 catalytic residues [active] 859656004535 substrate binding site [chemical binding]; other site 859656004536 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 859656004537 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 859656004538 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 859656004539 FeS/SAM binding site; other site 859656004540 TRAM domain; Region: TRAM; cl01282 859656004541 beta-ketothiolase; Provisional; Region: PRK09051 859656004542 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 859656004543 dimer interface [polypeptide binding]; other site 859656004544 active site 859656004545 cystathionine beta-lyase; Provisional; Region: PRK07050 859656004546 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 859656004547 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 859656004548 catalytic residue [active] 859656004549 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 859656004550 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 859656004551 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 859656004552 phosphoserine phosphatase; Provisional; Region: serB; PRK11133 859656004553 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 859656004554 motif II; other site 859656004555 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 859656004556 acetylornithine deacetylase (ArgE); Region: AcOrn-deacetyl; TIGR01892 859656004557 metal binding site [ion binding]; metal-binding site 859656004558 putative dimer interface [polypeptide binding]; other site 859656004559 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 859656004560 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 859656004561 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 859656004562 ATP binding site [chemical binding]; other site 859656004563 putative Mg++ binding site [ion binding]; other site 859656004564 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 859656004565 nucleotide binding region [chemical binding]; other site 859656004566 ATP-binding site [chemical binding]; other site 859656004567 TRCF domain; Region: TRCF; cl04088 859656004568 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 859656004569 substrate binding site; other site 859656004570 dimer interface; other site 859656004571 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 859656004572 homotrimer interaction site [polypeptide binding]; other site 859656004573 zinc binding site [ion binding]; other site 859656004574 CDP-binding sites; other site 859656004575 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 859656004576 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 859656004577 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 859656004578 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 859656004579 dimer interface [polypeptide binding]; other site 859656004580 decamer (pentamer of dimers) interface [polypeptide binding]; other site 859656004581 catalytic triad [active] 859656004582 peroxidatic and resolving cysteines [active] 859656004583 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 859656004584 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 859656004585 dimerization interface [polypeptide binding]; other site 859656004586 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 859656004587 ATP binding site [chemical binding]; other site 859656004588 Mg2+ binding site [ion binding]; other site 859656004589 G-X-G motif; other site 859656004590 osmolarity response regulator; Provisional; Region: ompR; PRK09468 859656004591 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 859656004592 active site 859656004593 phosphorylation site [posttranslational modification] 859656004594 intermolecular recognition site; other site 859656004595 dimerization interface [polypeptide binding]; other site 859656004596 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 859656004597 DNA binding site [nucleotide binding] 859656004598 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5267 859656004599 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 859656004600 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 859656004601 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 859656004602 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 859656004603 active site lid residues [active] 859656004604 substrate binding pocket [chemical binding]; other site 859656004605 catalytic residues [active] 859656004606 substrate-Mg2+ binding site; other site 859656004607 aspartate-rich region 1; other site 859656004608 aspartate-rich region 2; other site 859656004609 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 859656004610 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 859656004611 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 859656004612 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 859656004613 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 859656004614 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656004615 trigger factor; Provisional; Region: tig; PRK01490 859656004616 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 859656004617 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 859656004618 Clp protease; Region: CLP_protease; pfam00574 859656004619 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 859656004620 oligomer interface [polypeptide binding]; other site 859656004621 active site residues [active] 859656004622 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 859656004623 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 859656004624 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 859656004625 Walker A motif; other site 859656004626 ATP binding site [chemical binding]; other site 859656004627 Walker B motif; other site 859656004628 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 859656004629 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 859656004630 Found in ATP-dependent protease La (LON); Region: LON; smart00464 859656004631 Found in ATP-dependent protease La (LON); Region: LON; smart00464 859656004632 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 859656004633 Walker A motif; other site 859656004634 ATP binding site [chemical binding]; other site 859656004635 Walker B motif; other site 859656004636 arginine finger; other site 859656004637 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 859656004638 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 859656004639 IHF dimer interface [polypeptide binding]; other site 859656004640 IHF - DNA interface [nucleotide binding]; other site 859656004641 periplasmic folding chaperone; Provisional; Region: PRK10788 859656004642 SurA N-terminal domain; Region: SurA_N_3; cl07813 859656004643 PPIC-type PPIASE domain; Region: Rotamase; cl08278 859656004644 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 859656004645 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 859656004646 Catalytic site [active] 859656004647 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 859656004648 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 859656004649 active site 859656004650 catalytic triad [active] 859656004651 oxyanion hole [active] 859656004652 switch loop; other site 859656004653 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 859656004654 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 859656004655 Walker A/P-loop; other site 859656004656 ATP binding site [chemical binding]; other site 859656004657 Q-loop/lid; other site 859656004658 ABC transporter signature motif; other site 859656004659 Walker B; other site 859656004660 D-loop; other site 859656004661 H-loop/switch region; other site 859656004662 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 859656004663 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 859656004664 active site 859656004665 dimer interface [polypeptide binding]; other site 859656004666 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 859656004667 dimer interface [polypeptide binding]; other site 859656004668 active site 859656004669 putative carbohydrate kinase; Provisional; Region: PRK10565 859656004670 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 859656004671 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 859656004672 putative substrate binding site [chemical binding]; other site 859656004673 putative ATP binding site [chemical binding]; other site 859656004674 Helix-turn-helix domains; Region: HTH; cl00088 859656004675 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 859656004676 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 859656004677 dimerization interface [polypeptide binding]; other site 859656004678 ATP binding site [chemical binding]; other site 859656004679 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 859656004680 dimerization interface [polypeptide binding]; other site 859656004681 ATP binding site [chemical binding]; other site 859656004682 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 859656004683 putative active site [active] 859656004684 catalytic triad [active] 859656004685 Domain of unknown function (DUF1843); Region: DUF1843; pfam08898 859656004686 Domain of unknown function (DUF1842); Region: DUF1842; pfam08896 859656004687 Domain of unknown function (DUF1843); Region: DUF1843; pfam08898 859656004688 Domain of unknown function (DUF1842); Region: DUF1842; pfam08896 859656004689 Domain of unknown function (DUF1843); Region: DUF1843; pfam08898 859656004690 Y_X(10)_GDL-associated radical SAM protein; Region: rad_SAM_trio; TIGR03913 859656004691 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 859656004692 FeS/SAM binding site; other site 859656004693 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 859656004694 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859656004695 Helix-turn-helix domains; Region: HTH; cl00088 859656004696 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 859656004697 putative effector binding pocket; other site 859656004698 putative dimerization interface [polypeptide binding]; other site 859656004699 Mor transcription activator family; Region: Mor; cl02360 859656004700 Protein of unknown function (DUF1018); Region: DUF1018; cl01815 859656004701 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 859656004702 IHF dimer interface [polypeptide binding]; other site 859656004703 IHF - DNA interface [nucleotide binding]; other site 859656004704 Protein of unknown function (DUF3164); Region: DUF3164; pfam11363 859656004705 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl14656 859656004706 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 859656004707 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 859656004708 Integrase core domain; Region: rve; cl01316 859656004709 Helix-turn-helix domains; Region: HTH; cl00088 859656004710 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 859656004711 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 859656004712 non-specific DNA binding site [nucleotide binding]; other site 859656004713 salt bridge; other site 859656004714 sequence-specific DNA binding site [nucleotide binding]; other site 859656004715 Protein of unknown function (DUF4063); Region: DUF4063; pfam13272 859656004716 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 859656004717 N-acetyl-D-glucosamine binding site [chemical binding]; other site 859656004718 catalytic residue [active] 859656004719 Protein of unknown function (DUF3486); Region: DUF3486; pfam11985 859656004720 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 859656004721 Protein of unknown function (DUF935); Region: DUF935; pfam06074 859656004722 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 859656004723 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 859656004724 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 859656004725 Protein of unknown function (DUF1320); Region: DUF1320; cl01818 859656004726 Gp37 protein; Region: Gp37; pfam09646 859656004727 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 859656004728 Phage tail tube protein FII; Region: Phage_tube; cl01390 859656004729 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 859656004730 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 859656004731 Phage P2 GpU; Region: Phage_P2_GpU; cl01391 859656004732 Phage Tail Protein X; Region: Phage_tail_X; cl02088 859656004733 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 859656004734 Phage P2 baseplate assembly protein gpV [General function prediction only]; Region: gpV; COG4540 859656004735 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 859656004736 Bacteriophage Mu Gp45 protein; Region: Phage_Mu_Gp45; cl15410 859656004737 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 859656004738 Baseplate J-like protein; Region: Baseplate_J; cl01294 859656004739 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 859656004740 Phage-related tail fibre protein [General function prediction only]; Region: COG5301 859656004741 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 859656004742 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 859656004743 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 859656004744 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656004745 NAD(P) binding site [chemical binding]; other site 859656004746 active site 859656004747 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 859656004748 dimer interface [polypeptide binding]; other site 859656004749 conserved gate region; other site 859656004750 putative PBP binding loops; other site 859656004751 ABC-ATPase subunit interface; other site 859656004752 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 859656004753 dimer interface [polypeptide binding]; other site 859656004754 conserved gate region; other site 859656004755 putative PBP binding loops; other site 859656004756 ABC-ATPase subunit interface; other site 859656004757 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 859656004758 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 859656004759 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 859656004760 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 859656004761 Walker A/P-loop; other site 859656004762 ATP binding site [chemical binding]; other site 859656004763 Q-loop/lid; other site 859656004764 ABC transporter signature motif; other site 859656004765 Walker B; other site 859656004766 D-loop; other site 859656004767 H-loop/switch region; other site 859656004768 TOBE domain; Region: TOBE_2; cl01440 859656004769 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 859656004770 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 859656004771 dimer interface [polypeptide binding]; other site 859656004772 phosphorylation site [posttranslational modification] 859656004773 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 859656004774 ATP binding site [chemical binding]; other site 859656004775 Mg2+ binding site [ion binding]; other site 859656004776 G-X-G motif; other site 859656004777 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 859656004778 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 859656004779 active site 859656004780 phosphorylation site [posttranslational modification] 859656004781 intermolecular recognition site; other site 859656004782 dimerization interface [polypeptide binding]; other site 859656004783 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 859656004784 DNA binding site [nucleotide binding] 859656004785 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 859656004786 trimer interface [polypeptide binding]; other site 859656004787 eyelet of channel; other site 859656004788 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 859656004789 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 859656004790 Walker A/P-loop; other site 859656004791 ATP binding site [chemical binding]; other site 859656004792 Q-loop/lid; other site 859656004793 ABC transporter signature motif; other site 859656004794 Walker B; other site 859656004795 D-loop; other site 859656004796 H-loop/switch region; other site 859656004797 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 859656004798 TM-ABC transporter signature motif; other site 859656004799 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 859656004800 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 859656004801 zinc binding site [ion binding]; other site 859656004802 putative ligand binding site [chemical binding]; other site 859656004803 peptidyl-prolyl cis-trans isomerase, EpsD family; Region: cis_trans_EpsD; TIGR02925 859656004804 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 859656004805 PPIC-type PPIASE domain; Region: Rotamase; cl08278 859656004806 BolA-like protein; Region: BolA; cl00386 859656004807 Intracellular septation protein A; Region: IspA; cl01098 859656004808 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 859656004809 SelR domain; Region: SelR; pfam01641 859656004810 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 859656004811 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 859656004812 AMP-binding enzyme; Region: AMP-binding; cl15778 859656004813 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 859656004814 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 859656004815 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 859656004816 putative ligand binding site [chemical binding]; other site 859656004817 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 859656004818 TM-ABC transporter signature motif; other site 859656004819 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 859656004820 TM-ABC transporter signature motif; other site 859656004821 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 859656004822 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 859656004823 Walker A/P-loop; other site 859656004824 ATP binding site [chemical binding]; other site 859656004825 Q-loop/lid; other site 859656004826 ABC transporter signature motif; other site 859656004827 Walker B; other site 859656004828 D-loop; other site 859656004829 H-loop/switch region; other site 859656004830 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 859656004831 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 859656004832 Walker A/P-loop; other site 859656004833 ATP binding site [chemical binding]; other site 859656004834 Q-loop/lid; other site 859656004835 ABC transporter signature motif; other site 859656004836 Walker B; other site 859656004837 D-loop; other site 859656004838 H-loop/switch region; other site 859656004839 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 859656004840 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 859656004841 Interdomain contacts; other site 859656004842 Cytokine receptor motif; other site 859656004843 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 859656004844 lysine transporter; Provisional; Region: PRK10836 859656004845 lysine transporter; Provisional; Region: PRK10836 859656004846 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 859656004847 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 859656004848 substrate binding site [chemical binding]; other site 859656004849 oxyanion hole (OAH) forming residues; other site 859656004850 trimer interface [polypeptide binding]; other site 859656004851 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656004852 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 859656004853 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 859656004854 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 859656004855 Isochorismatase family; Region: Isochorismatase; pfam00857 859656004856 catalytic triad [active] 859656004857 metal binding site [ion binding]; metal-binding site 859656004858 conserved cis-peptide bond; other site 859656004859 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 859656004860 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 859656004861 dimer interface [polypeptide binding]; other site 859656004862 active site 859656004863 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 859656004864 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 859656004865 FAD binding site [chemical binding]; other site 859656004866 substrate binding site [chemical binding]; other site 859656004867 catalytic residues [active] 859656004868 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 859656004869 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 859656004870 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656004871 NAD(P) binding site [chemical binding]; other site 859656004872 active site 859656004873 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 859656004874 CoenzymeA binding site [chemical binding]; other site 859656004875 subunit interaction site [polypeptide binding]; other site 859656004876 PHB binding site; other site 859656004877 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 859656004878 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 859656004879 Prostaglandin dehydrogenases; Region: PGDH; cd05288 859656004880 NAD(P) binding site [chemical binding]; other site 859656004881 substrate binding site [chemical binding]; other site 859656004882 dimer interface [polypeptide binding]; other site 859656004883 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 859656004884 intersubunit interface [polypeptide binding]; other site 859656004885 active site 859656004886 Zn2+ binding site [ion binding]; other site 859656004887 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 859656004888 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 859656004889 C-terminal domain interface [polypeptide binding]; other site 859656004890 GSH binding site (G-site) [chemical binding]; other site 859656004891 dimer interface [polypeptide binding]; other site 859656004892 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 859656004893 N-terminal domain interface [polypeptide binding]; other site 859656004894 hypothetical protein; Provisional; Region: PRK06194 859656004895 classical (c) SDRs; Region: SDR_c; cd05233 859656004896 NAD(P) binding site [chemical binding]; other site 859656004897 active site 859656004898 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 859656004899 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 859656004900 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 859656004901 putative active site [active] 859656004902 metal binding site [ion binding]; metal-binding site 859656004903 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 859656004904 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 859656004905 substrate binding pocket [chemical binding]; other site 859656004906 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 859656004907 active site 859656004908 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 859656004909 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 859656004910 Coenzyme A binding pocket [chemical binding]; other site 859656004911 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656004912 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 859656004913 NAD(P) binding site [chemical binding]; other site 859656004914 active site 859656004915 NRDE protein; Region: NRDE; cl01315 859656004916 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 859656004917 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 859656004918 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 859656004919 YceG-like family; Region: YceG; pfam02618 859656004920 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 859656004921 dimerization interface [polypeptide binding]; other site 859656004922 thymidylate kinase; Validated; Region: tmk; PRK00698 859656004923 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 859656004924 TMP-binding site; other site 859656004925 ATP-binding site [chemical binding]; other site 859656004926 DNA polymerase III subunit delta'; Validated; Region: PRK06964 859656004927 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 859656004928 PilZ domain; Region: PilZ; cl01260 859656004929 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 859656004930 active site 859656004931 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 859656004932 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 859656004933 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 859656004934 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 859656004935 TIGR03440 family protein; Region: unchr_TIGR03440 859656004936 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 859656004937 Transcriptional regulators [Transcription]; Region: PurR; COG1609 859656004938 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 859656004939 DNA binding site [nucleotide binding] 859656004940 domain linker motif; other site 859656004941 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 859656004942 putative dimerization interface [polypeptide binding]; other site 859656004943 putative ligand binding site [chemical binding]; other site 859656004944 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 859656004945 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 859656004946 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 859656004947 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 859656004948 dimer interface [polypeptide binding]; other site 859656004949 conserved gate region; other site 859656004950 putative PBP binding loops; other site 859656004951 ABC-ATPase subunit interface; other site 859656004952 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 859656004953 dimer interface [polypeptide binding]; other site 859656004954 conserved gate region; other site 859656004955 putative PBP binding loops; other site 859656004956 ABC-ATPase subunit interface; other site 859656004957 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 859656004958 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 859656004959 Walker A/P-loop; other site 859656004960 ATP binding site [chemical binding]; other site 859656004961 Q-loop/lid; other site 859656004962 ABC transporter signature motif; other site 859656004963 Walker B; other site 859656004964 D-loop; other site 859656004965 H-loop/switch region; other site 859656004966 TOBE domain; Region: TOBE_2; cl01440 859656004967 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 859656004968 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 859656004969 active site 859656004970 metal binding site [ion binding]; metal-binding site 859656004971 hexamer interface [polypeptide binding]; other site 859656004972 polyhydroxyalkanoate depolymerase, intracellular; Region: PHB_depoly_PhaZ; TIGR01849 859656004973 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 859656004974 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 859656004975 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 859656004976 putative C-terminal domain interface [polypeptide binding]; other site 859656004977 putative GSH binding site (G-site) [chemical binding]; other site 859656004978 putative dimer interface [polypeptide binding]; other site 859656004979 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 859656004980 putative N-terminal domain interface [polypeptide binding]; other site 859656004981 putative dimer interface [polypeptide binding]; other site 859656004982 putative substrate binding pocket (H-site) [chemical binding]; other site 859656004983 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 859656004984 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 859656004985 tetramer interface [polypeptide binding]; other site 859656004986 TPP-binding site [chemical binding]; other site 859656004987 heterodimer interface [polypeptide binding]; other site 859656004988 phosphorylation loop region [posttranslational modification] 859656004989 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 859656004990 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 859656004991 alpha subunit interface [polypeptide binding]; other site 859656004992 TPP binding site [chemical binding]; other site 859656004993 heterodimer interface [polypeptide binding]; other site 859656004994 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 859656004995 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 859656004996 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 859656004997 E3 interaction surface; other site 859656004998 lipoyl attachment site [posttranslational modification]; other site 859656004999 e3 binding domain; Region: E3_binding; pfam02817 859656005000 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 859656005001 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 859656005002 Leucine-rich repeats; other site 859656005003 Substrate binding site [chemical binding]; other site 859656005004 Leucine rich repeat; Region: LRR_8; pfam13855 859656005005 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 859656005006 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 859656005007 Leucine-rich repeats; other site 859656005008 Substrate binding site [chemical binding]; other site 859656005009 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 859656005010 Leucine-rich repeats; other site 859656005011 Leucine rich repeat; Region: LRR_8; pfam13855 859656005012 Substrate binding site [chemical binding]; other site 859656005013 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 859656005014 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 859656005015 conserved cys residue [active] 859656005016 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 859656005017 Domain of unknown function DUF29; Region: DUF29; pfam01724 859656005018 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 859656005019 Protein of unknown function (DUF2523); Region: DUF2523; cl10291 859656005020 Replication initiation factor; Region: Rep_trans; pfam02486 859656005021 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 859656005022 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859656005023 Helix-turn-helix domains; Region: HTH; cl00088 859656005024 The C-terminal substrate-binding domian of LysR-type transcriptional regulator MdcR, which involved in the malonate catabolism contains the type 2 periplasmic binding fold; Region: PBP2_MdcR; cd08416 859656005025 putative dimerization interface [polypeptide binding]; other site 859656005026 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 859656005027 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 859656005028 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 859656005029 Malonate decarboxylase delta subunit (MdcD); Region: ACP; cl06082 859656005030 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 859656005031 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 859656005032 Malonate transporter MadL subunit; Region: MadL; cl04273 859656005033 Malonate/sodium symporter MadM subunit; Region: MadM; cl04274 859656005034 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; cl07913 859656005035 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 859656005036 Acyl transferase domain; Region: Acyl_transf_1; cl08282 859656005037 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 859656005038 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 859656005039 Evidence 2b : Function of strongly homologous gene; Product type e : enzyme 859656005040 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 859656005041 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656005042 NAD(P) binding site [chemical binding]; other site 859656005043 active site 859656005044 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : regulator 859656005045 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859656005046 Helix-turn-helix domains; Region: HTH; cl00088 859656005047 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 859656005048 dimerization interface [polypeptide binding]; other site 859656005049 Predicted amidohydrolase [General function prediction only]; Region: COG0388 859656005050 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 859656005051 putative active site [active] 859656005052 catalytic triad [active] 859656005053 putative dimer interface [polypeptide binding]; other site 859656005054 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 859656005055 Moco binding site; other site 859656005056 metal coordination site [ion binding]; other site 859656005057 dimerization interface [polypeptide binding]; other site 859656005058 cystathionine beta-lyase; Provisional; Region: PRK07050 859656005059 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 859656005060 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 859656005061 catalytic residue [active] 859656005062 nitrobindin heme-binding domain; Region: nitrobindin; cl10502 859656005063 heme-binding site [chemical binding]; other site 859656005064 Flavin Reductases; Region: FlaRed; cl00801 859656005065 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 859656005066 Protein of unknown function (DUF817); Region: DUF817; cl01520 859656005067 AAA domain; Region: AAA_26; pfam13500 859656005068 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 859656005069 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 859656005070 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 859656005071 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 859656005072 catalytic residue [active] 859656005073 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06943 859656005074 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 859656005075 inhibitor-cofactor binding pocket; inhibition site 859656005076 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859656005077 catalytic residue [active] 859656005078 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase (DHB DH)-like, classical (c) SDR; Region: DHB_DH-like_SDR_c; cd08937 859656005079 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 859656005080 putative NAD(P) binding site [chemical binding]; other site 859656005081 active site 859656005082 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 859656005083 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 859656005084 catalytic loop [active] 859656005085 iron binding site [ion binding]; other site 859656005086 Benzoate dioxygenase reductase (BenDO) FAD/NAD binding domain. Oxygenases oxidize hydrocarbons using dioxygen as the oxidant. As a Class I bacterial dioxygenases, benzoate dioxygenase like proteins combine an [2Fe-2S] cluster containing N-terminal...; Region: BenDO_FAD_NAD; cd06209 859656005087 FAD binding pocket [chemical binding]; other site 859656005088 FAD binding motif [chemical binding]; other site 859656005089 phosphate binding motif [ion binding]; other site 859656005090 beta-alpha-beta structure motif; other site 859656005091 NAD binding pocket [chemical binding]; other site 859656005092 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 859656005093 inter-subunit interface; other site 859656005094 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 859656005095 Rieske non-heme iron oxygenase (RO) family, 2-Halobenzoate 1,2-dioxygenase (HBDO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to...; Region: Rieske_RO_Alpha_HBDO; cd03542 859656005096 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 859656005097 putative alpha subunit interface [polypeptide binding]; other site 859656005098 putative active site [active] 859656005099 putative substrate binding site [chemical binding]; other site 859656005100 Fe binding site [ion binding]; other site 859656005101 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 859656005102 Catechol 1,2 dioxygenase (1,2-CTD) catalyzes an intradiol cleavage reaction of catechol to form cis,cis-muconate. 1,2-CTDs is homodimers with one catalytic non-heme ferric ion per monomer. They belong to the aromatic dioxygenase family, a family of...; Region: 1,2-CTD; cd03460 859656005103 dimer interface [polypeptide binding]; other site 859656005104 active site 859656005105 Muconolactone delta-isomerase; Region: MIase; cl01992 859656005106 Muconate Lactonizing Enzyme (MLE), an homooctameric enzyme, catalyses the conversion of cis,cis-muconate (CCM) to muconolactone (ML) in the catechol branch of the beta-ketoadipate pathway. This pathway is used in soil microbes to breakdown lignin-derived...; Region: MLE; cd03318 859656005107 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 859656005108 octamer interface [polypeptide binding]; other site 859656005109 active site 859656005110 Helix-turn-helix domains; Region: HTH; cl00088 859656005111 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 859656005112 dimerization interface [polypeptide binding]; other site 859656005113 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 859656005114 Transglycosylase; Region: Transgly; cl07896 859656005115 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 859656005116 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 859656005117 Helix-turn-helix domains; Region: HTH; cl00088 859656005118 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 859656005119 FMN binding site [chemical binding]; other site 859656005120 dimer interface [polypeptide binding]; other site 859656005121 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 859656005122 dimer interface [polypeptide binding]; other site 859656005123 E3 ubiquitin-protein ligase SspH2; Provisional; Region: PRK15387 859656005124 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 859656005125 putative substrate translocation pore; other site 859656005126 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 859656005127 LysR family transcriptional regulator; Provisional; Region: PRK14997 859656005128 Helix-turn-helix domains; Region: HTH; cl00088 859656005129 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 859656005130 putative effector binding pocket; other site 859656005131 dimerization interface [polypeptide binding]; other site 859656005132 CreA protein; Region: CreA; pfam05981 859656005133 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 859656005134 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 859656005135 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 859656005136 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 859656005137 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 859656005138 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 859656005139 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 859656005140 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 859656005141 Walker A motif; other site 859656005142 ATP binding site [chemical binding]; other site 859656005143 Walker B motif; other site 859656005144 arginine finger; other site 859656005145 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 859656005146 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 859656005147 metal ion-dependent adhesion site (MIDAS); other site 859656005148 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 859656005149 putative hydrophobic ligand binding site [chemical binding]; other site 859656005150 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 859656005151 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 859656005152 XdhC Rossmann domain; Region: XdhC_C; pfam13478 859656005153 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 859656005154 fatty acyl CoA reductases (FARs), extended (e) SDRs; Region: FAR-N_SDR_e; cd05236 859656005155 putative NAD(P) binding site [chemical binding]; other site 859656005156 active site 859656005157 putative substrate binding site [chemical binding]; other site 859656005158 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 859656005159 MgtC family; Region: MgtC; pfam02308 859656005160 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 859656005161 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 859656005162 dimer interface [polypeptide binding]; other site 859656005163 ligand binding site [chemical binding]; other site 859656005164 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 859656005165 dimerization interface [polypeptide binding]; other site 859656005166 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 859656005167 dimer interface [polypeptide binding]; other site 859656005168 putative CheW interface [polypeptide binding]; other site 859656005169 Evidence 4 : Homologs of previously reported genes of unknown function 859656005170 Evidence 4 : Homologs of previously reported genes of unknown function 859656005171 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 859656005172 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 859656005173 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 859656005174 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 859656005175 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 859656005176 NAD binding site [chemical binding]; other site 859656005177 catalytic residues [active] 859656005178 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 859656005179 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 859656005180 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 859656005181 ABC transporter; Region: ABC_tran_2; pfam12848 859656005182 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 859656005183 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 859656005184 dimer interface [polypeptide binding]; other site 859656005185 catalytic triad [active] 859656005186 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 859656005187 nucleoside/Zn binding site; other site 859656005188 dimer interface [polypeptide binding]; other site 859656005189 catalytic motif [active] 859656005190 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 859656005191 active site 859656005192 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 859656005193 chaperonin_like superfamily. 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. There are 2 main chaperonin groups. The symmetry of type I...; Region: chaperonin_like; cl02777 859656005194 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 859656005195 HipA N-terminal domain; Region: Couple_hipA; cl11853 859656005196 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 859656005197 HipA-like N-terminal domain; Region: HipA_N; pfam07805 859656005198 HipA-like C-terminal domain; Region: HipA_C; pfam07804 859656005199 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 859656005200 Major Facilitator Superfamily; Region: MFS_1; pfam07690 859656005201 putative substrate translocation pore; other site 859656005202 Evidence 2b : Function of strongly homologous gene; Product type r : regulator 859656005203 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 859656005204 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 859656005205 catalytic residues [active] 859656005206 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 859656005207 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 859656005208 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 859656005209 heterodimer interface [polypeptide binding]; other site 859656005210 active site 859656005211 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 859656005212 heterodimer interface [polypeptide binding]; other site 859656005213 multimer interface [polypeptide binding]; other site 859656005214 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 859656005215 active site 859656005216 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 859656005217 Helix-turn-helix domains; Region: HTH; cl00088 859656005218 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 859656005219 putative dimerization interface [polypeptide binding]; other site 859656005220 Integrase core domain; Region: rve; cl01316 859656005221 Integrase core domain; Region: rve_3; cl15866 859656005222 potential protein location (protein of unknown function [Ralstonia solanacearum]) that overlaps RNA (ribosomal RNA 16s_rRNA) 859656005223 GMP synthase; Reviewed; Region: guaA; PRK00074 859656005224 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 859656005225 AMP/PPi binding site [chemical binding]; other site 859656005226 candidate oxyanion hole; other site 859656005227 catalytic triad [active] 859656005228 potential glutamine specificity residues [chemical binding]; other site 859656005229 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 859656005230 ATP Binding subdomain [chemical binding]; other site 859656005231 Ligand Binding sites [chemical binding]; other site 859656005232 Dimerization subdomain; other site 859656005233 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 859656005234 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 859656005235 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 859656005236 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 859656005237 active site 859656005238 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 859656005239 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cl15768 859656005240 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 859656005241 putative coenzyme Q binding site [chemical binding]; other site 859656005242 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 859656005243 SmpB-tmRNA interface; other site 859656005244 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 859656005245 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 859656005246 phosphoenolpyruvate synthase; Validated; Region: PRK06464 859656005247 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 859656005248 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 859656005249 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 859656005250 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 859656005251 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 859656005252 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 859656005253 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 859656005254 RNA/DNA hybrid binding site [nucleotide binding]; other site 859656005255 active site 859656005256 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 859656005257 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 859656005258 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 859656005259 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 859656005260 active site 859656005261 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 859656005262 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 859656005263 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 859656005264 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 859656005265 trimer interface [polypeptide binding]; other site 859656005266 active site 859656005267 UDP-GlcNAc binding site [chemical binding]; other site 859656005268 lipid binding site [chemical binding]; lipid-binding site 859656005269 periplasmic chaperone; Provisional; Region: PRK10780 859656005270 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 859656005271 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 859656005272 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 859656005273 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 859656005274 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 859656005275 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 859656005276 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 859656005277 Surface antigen; Region: Bac_surface_Ag; cl03097 859656005278 zinc metallopeptidase RseP; Provisional; Region: PRK10779 859656005279 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 859656005280 active site 859656005281 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 859656005282 protein binding site [polypeptide binding]; other site 859656005283 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 859656005284 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 859656005285 putative substrate binding region [chemical binding]; other site 859656005286 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 859656005287 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 859656005288 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 859656005289 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 859656005290 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 859656005291 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; cl00230 859656005292 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 859656005293 catalytic residue [active] 859656005294 putative FPP diphosphate binding site; other site 859656005295 putative FPP binding hydrophobic cleft; other site 859656005296 dimer interface [polypeptide binding]; other site 859656005297 putative IPP diphosphate binding site; other site 859656005298 ribosome recycling factor; Reviewed; Region: frr; PRK00083 859656005299 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 859656005300 hinge region; other site 859656005301 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 859656005302 putative nucleotide binding site [chemical binding]; other site 859656005303 uridine monophosphate binding site [chemical binding]; other site 859656005304 homohexameric interface [polypeptide binding]; other site 859656005305 elongation factor Ts; Provisional; Region: tsf; PRK09377 859656005306 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 859656005307 Elongation factor TS; Region: EF_TS; pfam00889 859656005308 Elongation factor TS; Region: EF_TS; pfam00889 859656005309 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 859656005310 rRNA interaction site [nucleotide binding]; other site 859656005311 S8 interaction site; other site 859656005312 putative laminin-1 binding site; other site 859656005313 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 859656005314 active site 859656005315 PII uridylyl-transferase; Provisional; Region: PRK03059 859656005316 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 859656005317 metal binding triad; other site 859656005318 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 859656005319 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 859656005320 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 859656005321 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 859656005322 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 859656005323 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 859656005324 RNA binding surface [nucleotide binding]; other site 859656005325 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 859656005326 active site 859656005327 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 859656005328 active site 859656005329 catalytic residues [active] 859656005330 metal binding site [ion binding]; metal-binding site 859656005331 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 859656005332 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 859656005333 nucleotide binding pocket [chemical binding]; other site 859656005334 K-X-D-G motif; other site 859656005335 catalytic site [active] 859656005336 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 859656005337 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 859656005338 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 859656005339 Dimer interface [polypeptide binding]; other site 859656005340 BRCT sequence motif; other site 859656005341 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cl12038 859656005342 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 859656005343 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 859656005344 Walker A/P-loop; other site 859656005345 ATP binding site [chemical binding]; other site 859656005346 Q-loop/lid; other site 859656005347 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 859656005348 ABC transporter signature motif; other site 859656005349 Walker B; other site 859656005350 D-loop; other site 859656005351 H-loop/switch region; other site 859656005352 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 859656005353 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 859656005354 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 859656005355 succinyldiaminopimelate transaminase; Region: DapC_gpp; TIGR03538 859656005356 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 859656005357 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859656005358 homodimer interface [polypeptide binding]; other site 859656005359 catalytic residue [active] 859656005360 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 859656005361 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 859656005362 trimer interface [polypeptide binding]; other site 859656005363 active site 859656005364 substrate binding site [chemical binding]; other site 859656005365 CoA binding site [chemical binding]; other site 859656005366 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 859656005367 ArsC family; Region: ArsC; pfam03960 859656005368 putative catalytic residues [active] 859656005369 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 859656005370 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 859656005371 metal binding site [ion binding]; metal-binding site 859656005372 dimer interface [polypeptide binding]; other site 859656005373 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 859656005374 putative active site [active] 859656005375 putative metal binding residues [ion binding]; other site 859656005376 signature motif; other site 859656005377 putative triphosphate binding site [ion binding]; other site 859656005378 dimer interface [polypeptide binding]; other site 859656005379 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 859656005380 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 859656005381 S-adenosylmethionine binding site [chemical binding]; other site 859656005382 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_1; cd08663 859656005383 SxDxEG motif; other site 859656005384 active site 859656005385 metal binding site [ion binding]; metal-binding site 859656005386 homopentamer interface [polypeptide binding]; other site 859656005387 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 859656005388 homodimer interface [polypeptide binding]; other site 859656005389 homotetramer interface [polypeptide binding]; other site 859656005390 active site pocket [active] 859656005391 cleavage site 859656005392 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 859656005393 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 859656005394 dimer interface [polypeptide binding]; other site 859656005395 conserved gate region; other site 859656005396 putative PBP binding loops; other site 859656005397 ABC-ATPase subunit interface; other site 859656005398 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 859656005399 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 859656005400 dimer interface [polypeptide binding]; other site 859656005401 conserved gate region; other site 859656005402 putative PBP binding loops; other site 859656005403 ABC-ATPase subunit interface; other site 859656005404 The substrate-binding component of an uncharacterized ABC-type peptide import system Ylib contains the type 2 periplasmic binding fold; Region: PBP2_Ylib_like; cd08499 859656005405 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 859656005406 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 859656005407 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 859656005408 Walker A/P-loop; other site 859656005409 ATP binding site [chemical binding]; other site 859656005410 Q-loop/lid; other site 859656005411 ABC transporter signature motif; other site 859656005412 Walker B; other site 859656005413 D-loop; other site 859656005414 H-loop/switch region; other site 859656005415 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 859656005416 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 859656005417 Walker A/P-loop; other site 859656005418 ATP binding site [chemical binding]; other site 859656005419 Q-loop/lid; other site 859656005420 ABC transporter signature motif; other site 859656005421 Walker B; other site 859656005422 D-loop; other site 859656005423 H-loop/switch region; other site 859656005424 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 859656005425 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 859656005426 catalytic nucleophile [active] 859656005427 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 859656005428 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 859656005429 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 859656005430 putative active site [active] 859656005431 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 859656005432 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 859656005433 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 859656005434 ABC transporter; Region: ABC_tran_2; pfam12848 859656005435 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 859656005436 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 859656005437 CoA-transferase family III; Region: CoA_transf_3; pfam02515 859656005438 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 859656005439 DNA repair protein RadA; Provisional; Region: PRK11823 859656005440 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 859656005441 Walker A motif/ATP binding site; other site 859656005442 ATP binding site [chemical binding]; other site 859656005443 Walker B motif; other site 859656005444 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 859656005445 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 859656005446 alanine racemase; Reviewed; Region: dadX; PRK03646 859656005447 active site 859656005448 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 859656005449 substrate binding site [chemical binding]; other site 859656005450 catalytic residues [active] 859656005451 dimer interface [polypeptide binding]; other site 859656005452 lysophospholipid transporter LplT; Provisional; Region: PRK11195 859656005453 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 859656005454 Fe-S cluster binding site [ion binding]; other site 859656005455 active site 859656005456 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 859656005457 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 859656005458 Coenzyme A binding pocket [chemical binding]; other site 859656005459 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 859656005460 Acyl CoA binding protein (ACBP) binds thiol esters of long fatty acids and coenzyme A in a one-to-one binding mode with high specificity and affinity. Acyl-CoAs are important intermediates in fatty lipid synthesis and fatty acid degradation and play a...; Region: ACBP; cl00221 859656005461 acyl-CoA binding pocket [chemical binding]; other site 859656005462 CoA binding site [chemical binding]; other site 859656005463 DUF1857, an uncharacterized ligand-binding domain of the SRPBCC domain superfamily; Region: SRPBCC_DUF1857; cd08863 859656005464 putative hydrophobic ligand binding site [chemical binding]; other site 859656005465 malate synthase A; Region: malate_syn_A; TIGR01344 859656005466 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 859656005467 active site 859656005468 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 859656005469 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 859656005470 motif II; other site 859656005471 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859656005472 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 859656005473 putative effector binding pocket; other site 859656005474 dimerization interface [polypeptide binding]; other site 859656005475 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 859656005476 Ligand Binding Site [chemical binding]; other site 859656005477 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 859656005478 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 859656005479 tetramer interface [polypeptide binding]; other site 859656005480 active site 859656005481 Mg2+/Mn2+ binding site [ion binding]; other site 859656005482 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 859656005483 Leucine-rich repeats; other site 859656005484 Substrate binding site [chemical binding]; other site 859656005485 Leucine rich repeat; Region: LRR_8; pfam13855 859656005486 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 859656005487 Leucine-rich repeats; other site 859656005488 Substrate binding site [chemical binding]; other site 859656005489 Leucine rich repeat; Region: LRR_8; pfam13855 859656005490 Leucine rich repeat; Region: LRR_8; pfam13855 859656005491 Leucine rich repeat; Region: LRR_8; pfam13855 859656005492 Leucine rich repeat; Region: LRR_8; pfam13855 859656005493 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 859656005494 putative active site pocket [active] 859656005495 dimerization interface [polypeptide binding]; other site 859656005496 putative catalytic residue [active] 859656005497 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 859656005498 thiamine pyrophosphate protein; Validated; Region: PRK08199 859656005499 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 859656005500 PYR/PP interface [polypeptide binding]; other site 859656005501 dimer interface [polypeptide binding]; other site 859656005502 TPP binding site [chemical binding]; other site 859656005503 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 859656005504 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 859656005505 TPP-binding site [chemical binding]; other site 859656005506 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12683 859656005507 Helix-turn-helix domains; Region: HTH; cl00088 859656005508 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 859656005509 substrate binding site [chemical binding]; other site 859656005510 dimerization interface [polypeptide binding]; other site 859656005511 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 859656005512 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 859656005513 Walker A/P-loop; other site 859656005514 ATP binding site [chemical binding]; other site 859656005515 Q-loop/lid; other site 859656005516 ABC transporter signature motif; other site 859656005517 Walker B; other site 859656005518 D-loop; other site 859656005519 H-loop/switch region; other site 859656005520 TOBE-like domain; Region: TOBE_3; pfam12857 859656005521 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 859656005522 dimer interface [polypeptide binding]; other site 859656005523 conserved gate region; other site 859656005524 putative PBP binding loops; other site 859656005525 ABC-ATPase subunit interface; other site 859656005526 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 859656005527 dimer interface [polypeptide binding]; other site 859656005528 conserved gate region; other site 859656005529 putative PBP binding loops; other site 859656005530 ABC-ATPase subunit interface; other site 859656005531 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 859656005532 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; cl00290 859656005533 TOBE domain; Region: TOBE_2; cl01440 859656005534 Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; PubMedId : 10506196, 16204527; Product type e : enzyme 859656005535 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 859656005536 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 859656005537 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 859656005538 Clp amino terminal domain; Region: Clp_N; pfam02861 859656005539 Clp amino terminal domain; Region: Clp_N; pfam02861 859656005540 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 859656005541 Walker A motif; other site 859656005542 ATP binding site [chemical binding]; other site 859656005543 Walker B motif; other site 859656005544 arginine finger; other site 859656005545 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 859656005546 Walker A motif; other site 859656005547 ATP binding site [chemical binding]; other site 859656005548 Walker B motif; other site 859656005549 arginine finger; other site 859656005550 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 859656005551 3HB-oligomer hydrolase (3HBOH); Region: 3HBOH; pfam10605 859656005552 CrcB-like protein; Region: CRCB; cl09114 859656005553 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 859656005554 MoaE homodimer interface [polypeptide binding]; other site 859656005555 MoaD interaction [polypeptide binding]; other site 859656005556 active site residues [active] 859656005557 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 859656005558 MoaE interaction surface [polypeptide binding]; other site 859656005559 MoeB interaction surface [polypeptide binding]; other site 859656005560 thiocarboxylated glycine; other site 859656005561 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 859656005562 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 859656005563 dimer interface [polypeptide binding]; other site 859656005564 putative functional site; other site 859656005565 putative MPT binding site; other site 859656005566 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 859656005567 putative uracil binding site [chemical binding]; other site 859656005568 putative active site [active] 859656005569 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 859656005570 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 859656005571 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859656005572 catalytic residue [active] 859656005573 homoserine dehydrogenase; Provisional; Region: PRK06349 859656005574 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656005575 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 859656005576 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 859656005577 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 859656005578 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 859656005579 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859656005580 homodimer interface [polypeptide binding]; other site 859656005581 catalytic residue [active] 859656005582 Xcc1710_like family, specific to proteobacteria. Xcc1710 is a hypothetical protein from Xanthomonas campestris pv. campestris str. ATCC 33913, similar to Mth938, a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome; Region: Xcc1710_like; cd05560 859656005583 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 859656005584 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 859656005585 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 859656005586 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 859656005587 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 859656005588 inhibitor-cofactor binding pocket; inhibition site 859656005589 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859656005590 catalytic residue [active] 859656005591 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 859656005592 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 859656005593 Ligand binding site; other site 859656005594 Putative Catalytic site; other site 859656005595 DXD motif; other site 859656005596 putative formyltransferase; Provisional; Region: PRK06988 859656005597 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 859656005598 active site 859656005599 substrate binding site [chemical binding]; other site 859656005600 cosubstrate binding site; other site 859656005601 catalytic site [active] 859656005602 C-terminal subdomain of the formyltransferase domain on ArnA, which modifies lipid A with 4-amino-4-deoxy-l-arabinose; Region: Arna_FMT_C; cd08702 859656005603 active site 859656005604 NAD-dependent epimerase/dehydratase family protein; Provisional; Region: PRK11908 859656005605 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 859656005606 NAD binding site [chemical binding]; other site 859656005607 substrate binding site [chemical binding]; other site 859656005608 active site 859656005609 Catalytic domain of Escherichia coli 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD and other bacterial homologs; Region: CE4_ArnD; cd10939 859656005610 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 859656005611 putative active site [active] 859656005612 putative catalytic site [active] 859656005613 putative Zn binding site [ion binding]; other site 859656005614 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 859656005615 catalytic triad [active] 859656005616 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 859656005617 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 859656005618 putative active site [active] 859656005619 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 859656005620 NlpC/P60 family; Region: NLPC_P60; cl11438 859656005621 Phosphate transporter family; Region: PHO4; cl00396 859656005622 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 859656005623 replicative DNA helicase; Provisional; Region: PRK07004 859656005624 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 859656005625 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 859656005626 Walker A motif; other site 859656005627 ATP binding site [chemical binding]; other site 859656005628 Walker B motif; other site 859656005629 DNA binding loops [nucleotide binding] 859656005630 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 859656005631 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 859656005632 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 859656005633 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 859656005634 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 859656005635 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 859656005636 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 859656005637 active site 859656005638 homotetramer interface [polypeptide binding]; other site 859656005639 homodimer interface [polypeptide binding]; other site 859656005640 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 859656005641 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 859656005642 FAD binding pocket [chemical binding]; other site 859656005643 FAD binding motif [chemical binding]; other site 859656005644 phosphate binding motif [ion binding]; other site 859656005645 beta-alpha-beta structure motif; other site 859656005646 NAD binding pocket [chemical binding]; other site 859656005647 LexA repressor; Validated; Region: PRK00215 859656005648 Helix-turn-helix domains; Region: HTH; cl00088 859656005649 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 859656005650 Catalytic site [active] 859656005651 hypothetical protein; Provisional; Region: PRK06156 859656005652 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 859656005653 active site 859656005654 metal binding site [ion binding]; metal-binding site 859656005655 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4994 859656005656 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 859656005657 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 859656005658 FMN binding site [chemical binding]; other site 859656005659 active site 859656005660 catalytic residues [active] 859656005661 substrate binding site [chemical binding]; other site 859656005662 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 859656005663 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 859656005664 substrate binding site [chemical binding]; other site 859656005665 oxyanion hole (OAH) forming residues; other site 859656005666 trimer interface [polypeptide binding]; other site 859656005667 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 859656005668 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 859656005669 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 859656005670 G1 box; other site 859656005671 putative GEF interaction site [polypeptide binding]; other site 859656005672 GTP/Mg2+ binding site [chemical binding]; other site 859656005673 Switch I region; other site 859656005674 G2 box; other site 859656005675 G3 box; other site 859656005676 Switch II region; other site 859656005677 G4 box; other site 859656005678 G5 box; other site 859656005679 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 859656005680 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 859656005681 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 859656005682 Helix-turn-helix domains; Region: HTH; cl00088 859656005683 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 859656005684 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 859656005685 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 859656005686 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 859656005687 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 859656005688 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 859656005689 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 859656005690 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 859656005691 putative substrate translocation pore; other site 859656005692 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 859656005693 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 859656005694 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 859656005695 RNA binding site [nucleotide binding]; other site 859656005696 active site 859656005697 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 859656005698 Ribosome-binding factor A; Region: RBFA; cl00542 859656005699 translation initiation factor IF-2; Validated; Region: infB; PRK05306 859656005700 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 859656005701 translation initiation factor IF-2; Region: IF-2; TIGR00487 859656005702 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 859656005703 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 859656005704 G1 box; other site 859656005705 putative GEF interaction site [polypeptide binding]; other site 859656005706 GTP/Mg2+ binding site [chemical binding]; other site 859656005707 Switch I region; other site 859656005708 G2 box; other site 859656005709 G3 box; other site 859656005710 Switch II region; other site 859656005711 G4 box; other site 859656005712 G5 box; other site 859656005713 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 859656005714 Translation-initiation factor 2; Region: IF-2; pfam11987 859656005715 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 859656005716 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 859656005717 NusA N-terminal domain; Region: NusA_N; pfam08529 859656005718 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 859656005719 RNA binding site [nucleotide binding]; other site 859656005720 homodimer interface [polypeptide binding]; other site 859656005721 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 859656005722 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 859656005723 G-X-X-G motif; other site 859656005724 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 859656005725 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 859656005726 Uncharacterized BCR, YhbC family COG0779; Region: DUF150; pfam02576 859656005727 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 859656005728 YxlS is a Bacillus subtilis gene of unknown function with two domains that each have an alpha/beta fold. The N-terminal domain is composed of two alpha-helices and a three-stranded beta-sheet, while the C-terminal domain is composed of one alpha-helix...; Region: YlxS_C; cd01734 859656005729 Sm1 motif; other site 859656005730 predicted subunit interaction site [polypeptide binding]; other site 859656005731 RNA binding pocket [nucleotide binding]; other site 859656005732 Sm2 motif; other site 859656005733 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 859656005734 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 859656005735 RNA binding surface [nucleotide binding]; other site 859656005736 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 859656005737 probable active site [active] 859656005738 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 859656005739 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 859656005740 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 859656005741 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 859656005742 ligand binding site [chemical binding]; other site 859656005743 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 859656005744 putative switch regulator; other site 859656005745 non-specific DNA interactions [nucleotide binding]; other site 859656005746 DNA binding site [nucleotide binding] 859656005747 sequence specific DNA binding site [nucleotide binding]; other site 859656005748 putative cAMP binding site [chemical binding]; other site 859656005749 FixH; Region: FixH; cl01254 859656005750 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 859656005751 4Fe-4S binding domain; Region: Fer4_5; pfam12801 859656005752 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 859656005753 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 859656005754 Cytochrome c; Region: Cytochrom_C; cl11414 859656005755 Cytochrome c; Region: Cytochrom_C; cl11414 859656005756 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; cl00282 859656005757 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 859656005758 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 859656005759 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 859656005760 Low-spin heme binding site [chemical binding]; other site 859656005761 Putative water exit pathway; other site 859656005762 Binuclear center (active site) [active] 859656005763 Putative proton exit pathway; other site 859656005764 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 859656005765 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 859656005766 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 859656005767 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 859656005768 metal-binding site [ion binding] 859656005769 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 859656005770 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 859656005771 Phosphosulfolactate phosphohydrolase and related enzymes [Coenzyme metabolism / General function prediction only]; Region: COG2045 859656005772 2-phosphosulpholactate phosphatase; Region: 2-ph_phosp; cl00895 859656005773 Predicted ATPase [General function prediction only]; Region: COG1485 859656005774 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 859656005775 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 859656005776 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 859656005777 Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; PubMedId : 6376124; Product type e : enzyme 859656005778 Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; PubMedId : 6376124; Product type e : enzyme 859656005779 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 859656005780 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 859656005781 TPP-binding site [chemical binding]; other site 859656005782 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 859656005783 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 859656005784 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 859656005785 putative active site [active] 859656005786 catalytic site [active] 859656005787 putative metal binding site [ion binding]; other site 859656005788 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 859656005789 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 859656005790 Walker A/P-loop; other site 859656005791 ATP binding site [chemical binding]; other site 859656005792 Q-loop/lid; other site 859656005793 ABC transporter signature motif; other site 859656005794 Walker B; other site 859656005795 D-loop; other site 859656005796 H-loop/switch region; other site 859656005797 TOBE domain; Region: TOBE_2; cl01440 859656005798 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 859656005799 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 859656005800 dimer interface [polypeptide binding]; other site 859656005801 conserved gate region; other site 859656005802 putative PBP binding loops; other site 859656005803 ABC-ATPase subunit interface; other site 859656005804 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 859656005805 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 859656005806 dimer interface [polypeptide binding]; other site 859656005807 conserved gate region; other site 859656005808 putative PBP binding loops; other site 859656005809 ABC-ATPase subunit interface; other site 859656005810 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 859656005811 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 859656005812 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 859656005813 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 859656005814 active site 859656005815 motif I; other site 859656005816 motif II; other site 859656005817 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 859656005818 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 859656005819 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 859656005820 active site 859656005821 phosphorylation site [posttranslational modification] 859656005822 intermolecular recognition site; other site 859656005823 dimerization interface [polypeptide binding]; other site 859656005824 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 859656005825 Walker A motif; other site 859656005826 ATP binding site [chemical binding]; other site 859656005827 Walker B motif; other site 859656005828 arginine finger; other site 859656005829 Helix-turn-helix domains; Region: HTH; cl00088 859656005830 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 859656005831 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 859656005832 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 859656005833 dimer interface [polypeptide binding]; other site 859656005834 phosphorylation site [posttranslational modification] 859656005835 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 859656005836 ATP binding site [chemical binding]; other site 859656005837 Mg2+ binding site [ion binding]; other site 859656005838 G-X-G motif; other site 859656005839 glutamine synthetase; Provisional; Region: glnA; PRK09469 859656005840 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 859656005841 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 859656005842 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 859656005843 active site residue [active] 859656005844 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 859656005845 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 859656005846 putative MPT binding site; other site 859656005847 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 859656005848 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 859656005849 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 859656005850 NodB motif; other site 859656005851 active site 859656005852 catalytic site [active] 859656005853 metal binding site [ion binding]; metal-binding site 859656005854 Uncharacterized conserved protein [Function unknown]; Region: COG3391 859656005855 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 859656005856 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 859656005857 ATP binding site [chemical binding]; other site 859656005858 putative Mg++ binding site [ion binding]; other site 859656005859 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 859656005860 Helicase associated domain (HA2); Region: HA2; cl04503 859656005861 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 859656005862 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 859656005863 N-acetylglutamate synthase; Validated; Region: PRK05279 859656005864 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 859656005865 putative feedback inhibition sensing region; other site 859656005866 putative nucleotide binding site [chemical binding]; other site 859656005867 putative substrate binding site [chemical binding]; other site 859656005868 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 859656005869 Coenzyme A binding pocket [chemical binding]; other site 859656005870 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 859656005871 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656005872 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 859656005873 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 859656005874 KduI/IolB family; Region: KduI; cl01508 859656005875 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 859656005876 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 859656005877 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 859656005878 PYR/PP interface [polypeptide binding]; other site 859656005879 dimer interface [polypeptide binding]; other site 859656005880 TPP binding site [chemical binding]; other site 859656005881 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 859656005882 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 859656005883 TPP-binding site [chemical binding]; other site 859656005884 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 859656005885 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 859656005886 substrate binding site [chemical binding]; other site 859656005887 ATP binding site [chemical binding]; other site 859656005888 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 859656005889 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 859656005890 TM-ABC transporter signature motif; other site 859656005891 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 859656005892 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 859656005893 Walker A/P-loop; other site 859656005894 ATP binding site [chemical binding]; other site 859656005895 Q-loop/lid; other site 859656005896 ABC transporter signature motif; other site 859656005897 Walker B; other site 859656005898 D-loop; other site 859656005899 H-loop/switch region; other site 859656005900 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 859656005901 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 859656005902 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 859656005903 putative ligand binding site [chemical binding]; other site 859656005904 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 859656005905 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 859656005906 DNA binding site [nucleotide binding] 859656005907 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 859656005908 putative ligand binding site [chemical binding]; other site 859656005909 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 859656005910 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 859656005911 putative di-iron ligands [ion binding]; other site 859656005912 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 859656005913 [2Fe-2S] cluster binding site [ion binding]; other site 859656005914 Predicted sugar epimerase [Carbohydrate transport and metabolism]; Region: COG4130 859656005915 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 859656005916 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 859656005917 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 859656005918 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 859656005919 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 859656005920 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 859656005921 putative active site [active] 859656005922 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 859656005923 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656005924 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 859656005925 Bacterial Fe(2+) trafficking; Region: Iron_traffic; cl01104 859656005926 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 859656005927 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 859656005928 dimerization interface [polypeptide binding]; other site 859656005929 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 859656005930 dimer interface [polypeptide binding]; other site 859656005931 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 859656005932 putative CheW interface [polypeptide binding]; other site 859656005933 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily, YbbW-like; solute-binding domain; Region: SLC-NCS1sbd_YbbW-like; cd11485 859656005934 Na binding site [ion binding]; other site 859656005935 putative substrate binding site [chemical binding]; other site 859656005936 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 859656005937 tetramer (dimer of dimers) interface [polypeptide binding]; other site 859656005938 active site 859656005939 dimer interface [polypeptide binding]; other site 859656005940 transaldolase-like protein; Provisional; Region: PTZ00411 859656005941 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 859656005942 active site 859656005943 dimer interface [polypeptide binding]; other site 859656005944 catalytic residue [active] 859656005945 NAD-dependent deacetylase; Provisional; Region: PRK00481 859656005946 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 859656005947 NAD+ binding site [chemical binding]; other site 859656005948 substrate binding site [chemical binding]; other site 859656005949 Zn binding site [ion binding]; other site 859656005950 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 859656005951 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 859656005952 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 859656005953 ribonuclease R; Region: RNase_R; TIGR02063 859656005954 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 859656005955 RNB domain; Region: RNB; pfam00773 859656005956 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 859656005957 RNA binding site [nucleotide binding]; other site 859656005958 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 859656005959 active site 859656005960 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 859656005961 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 859656005962 GDP-binding site [chemical binding]; other site 859656005963 ACT binding site; other site 859656005964 IMP binding site; other site 859656005965 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 859656005966 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 859656005967 dimer interface [polypeptide binding]; other site 859656005968 motif 1; other site 859656005969 active site 859656005970 motif 2; other site 859656005971 motif 3; other site 859656005972 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; cl01275 859656005973 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 859656005974 HflC protein; Region: hflC; TIGR01932 859656005975 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 859656005976 HflK protein; Region: hflK; TIGR01933 859656005977 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 859656005978 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 859656005979 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 859656005980 HflX GTPase family; Region: HflX; cd01878 859656005981 G1 box; other site 859656005982 GTP/Mg2+ binding site [chemical binding]; other site 859656005983 Switch I region; other site 859656005984 G2 box; other site 859656005985 G3 box; other site 859656005986 Switch II region; other site 859656005987 G4 box; other site 859656005988 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 859656005989 Sm1 motif; other site 859656005990 intra - hexamer interaction site; other site 859656005991 inter - hexamer interaction site [polypeptide binding]; other site 859656005992 nucleotide binding pocket [chemical binding]; other site 859656005993 Sm2 motif; other site 859656005994 GTP-binding protein Der; Reviewed; Region: PRK00093 859656005995 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 859656005996 G1 box; other site 859656005997 GTP/Mg2+ binding site [chemical binding]; other site 859656005998 Switch I region; other site 859656005999 G2 box; other site 859656006000 Switch II region; other site 859656006001 G3 box; other site 859656006002 G4 box; other site 859656006003 G5 box; other site 859656006004 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 859656006005 G1 box; other site 859656006006 GTP/Mg2+ binding site [chemical binding]; other site 859656006007 Switch I region; other site 859656006008 G2 box; other site 859656006009 G3 box; other site 859656006010 Switch II region; other site 859656006011 G4 box; other site 859656006012 G5 box; other site 859656006013 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 859656006014 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 859656006015 Trp docking motif [polypeptide binding]; other site 859656006016 active site 859656006017 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 859656006018 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 859656006019 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 859656006020 dimer interface [polypeptide binding]; other site 859656006021 motif 1; other site 859656006022 active site 859656006023 motif 2; other site 859656006024 motif 3; other site 859656006025 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 859656006026 anticodon binding site; other site 859656006027 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 859656006028 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 859656006029 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 859656006030 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 859656006031 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 859656006032 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 859656006033 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 859656006034 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 859656006035 binding surface 859656006036 TPR motif; other site 859656006037 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 859656006038 binding surface 859656006039 TPR motif; other site 859656006040 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 859656006041 binding surface 859656006042 TPR motif; other site 859656006043 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 859656006044 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 859656006045 FeS/SAM binding site; other site 859656006046 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 859656006047 active site 859656006048 multimer interface [polypeptide binding]; other site 859656006049 YccA-like proteins; Region: YccA_like; cd10433 859656006050 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 859656006051 TRAM domain; Region: TRAM; cl01282 859656006052 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 859656006053 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 859656006054 S-adenosylmethionine binding site [chemical binding]; other site 859656006055 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 859656006056 putative catalytic site [active] 859656006057 putative metal binding site [ion binding]; other site 859656006058 putative phosphate binding site [ion binding]; other site 859656006059 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 859656006060 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 859656006061 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 859656006062 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 859656006063 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 859656006064 DNA binding residues [nucleotide binding] 859656006065 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 859656006066 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 859656006067 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 859656006068 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 859656006069 Survival protein SurE; Region: SurE; cl00448 859656006070 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 859656006071 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 859656006072 NAD(P) binding site [chemical binding]; other site 859656006073 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 859656006074 FMN binding site [chemical binding]; other site 859656006075 active site 859656006076 substrate binding site [chemical binding]; other site 859656006077 catalytic residue [active] 859656006078 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 859656006079 Helix-turn-helix domains; Region: HTH; cl00088 859656006080 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 859656006081 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 859656006082 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 859656006083 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 859656006084 Walker A/P-loop; other site 859656006085 ATP binding site [chemical binding]; other site 859656006086 Q-loop/lid; other site 859656006087 ABC transporter signature motif; other site 859656006088 Walker B; other site 859656006089 D-loop; other site 859656006090 H-loop/switch region; other site 859656006091 NMT1-like family; Region: NMT1_2; cl15260 859656006092 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 859656006093 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 859656006094 CoA-transferase family III; Region: CoA_transf_3; pfam02515 859656006095 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859656006096 Helix-turn-helix domains; Region: HTH; cl00088 859656006097 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 859656006098 putative dimerization interface [polypeptide binding]; other site 859656006099 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 859656006100 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 859656006101 recombination protein RecR; Reviewed; Region: recR; PRK00076 859656006102 RecR protein; Region: RecR; pfam02132 859656006103 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 859656006104 putative active site [active] 859656006105 putative metal-binding site [ion binding]; other site 859656006106 tetramer interface [polypeptide binding]; other site 859656006107 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 859656006108 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 859656006109 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 859656006110 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 859656006111 Walker A motif; other site 859656006112 ATP binding site [chemical binding]; other site 859656006113 Walker B motif; other site 859656006114 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 859656006115 arginine finger; other site 859656006116 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 859656006117 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK12323 859656006118 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 859656006119 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 859656006120 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 859656006121 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 859656006122 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 859656006123 catalytic residues [active] 859656006124 transcription termination factor Rho; Provisional; Region: rho; PRK09376 859656006125 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 859656006126 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 859656006127 RNA binding site [nucleotide binding]; other site 859656006128 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 859656006129 multimer interface [polypeptide binding]; other site 859656006130 Walker A motif; other site 859656006131 ATP binding site [chemical binding]; other site 859656006132 Walker B motif; other site 859656006133 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 859656006134 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 859656006135 Walker A motif; other site 859656006136 ATP binding site [chemical binding]; other site 859656006137 Walker B motif; other site 859656006138 arginine finger; other site 859656006139 Helix-turn-helix domains; Region: HTH; cl00088 859656006140 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 859656006141 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 859656006142 active site 859656006143 phosphorylation site [posttranslational modification] 859656006144 intermolecular recognition site; other site 859656006145 dimerization interface [polypeptide binding]; other site 859656006146 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 859656006147 DNA binding residues [nucleotide binding] 859656006148 dimerization interface [polypeptide binding]; other site 859656006149 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; cl01267 859656006150 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 859656006151 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 859656006152 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 859656006153 putative efflux protein, MATE family; Region: matE; TIGR00797 859656006154 MatE; Region: MatE; cl10513 859656006155 MatE; Region: MatE; cl10513 859656006156 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 859656006157 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 859656006158 active site 859656006159 HIGH motif; other site 859656006160 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 859656006161 active site 859656006162 KMSKS motif; other site 859656006163 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 859656006164 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 859656006165 nucleophile elbow; other site 859656006166 NlpC/P60 family; Region: NLPC_P60; cl11438 859656006167 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 859656006168 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 859656006169 Walker A/P-loop; other site 859656006170 ATP binding site [chemical binding]; other site 859656006171 Q-loop/lid; other site 859656006172 ABC transporter signature motif; other site 859656006173 Walker B; other site 859656006174 D-loop; other site 859656006175 H-loop/switch region; other site 859656006176 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 859656006177 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 859656006178 Walker A/P-loop; other site 859656006179 ATP binding site [chemical binding]; other site 859656006180 Q-loop/lid; other site 859656006181 ABC transporter signature motif; other site 859656006182 Walker B; other site 859656006183 D-loop; other site 859656006184 H-loop/switch region; other site 859656006185 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 859656006186 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 859656006187 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 859656006188 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 859656006189 dimer interface [polypeptide binding]; other site 859656006190 conserved gate region; other site 859656006191 putative PBP binding loops; other site 859656006192 ABC-ATPase subunit interface; other site 859656006193 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 859656006194 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 859656006195 dimer interface [polypeptide binding]; other site 859656006196 conserved gate region; other site 859656006197 putative PBP binding loops; other site 859656006198 ABC-ATPase subunit interface; other site 859656006199 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 859656006200 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 859656006201 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06997 859656006202 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 859656006203 NAD binding site [chemical binding]; other site 859656006204 homotetramer interface [polypeptide binding]; other site 859656006205 homodimer interface [polypeptide binding]; other site 859656006206 substrate binding site [chemical binding]; other site 859656006207 active site 859656006208 aspartate kinase; Reviewed; Region: PRK06635 859656006209 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 859656006210 putative nucleotide binding site [chemical binding]; other site 859656006211 putative catalytic residues [active] 859656006212 putative Mg ion binding site [ion binding]; other site 859656006213 putative aspartate binding site [chemical binding]; other site 859656006214 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 859656006215 putative allosteric regulatory site; other site 859656006216 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 859656006217 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 859656006218 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 859656006219 Ligand Binding Site [chemical binding]; other site 859656006220 TilS substrate binding domain; Region: TilS; pfam09179 859656006221 B3/4 domain; Region: B3_4; cl11458 859656006222 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 859656006223 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 859656006224 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 859656006225 endonuclease III; Region: ENDO3c; smart00478 859656006226 minor groove reading motif; other site 859656006227 helix-hairpin-helix signature motif; other site 859656006228 substrate binding pocket [chemical binding]; other site 859656006229 active site 859656006230 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 859656006231 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 859656006232 active site 859656006233 HIGH motif; other site 859656006234 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 859656006235 KMSKS motif; other site 859656006236 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 859656006237 tRNA binding surface [nucleotide binding]; other site 859656006238 anticodon binding site; other site 859656006239 TPR repeat; Region: TPR_11; pfam13414 859656006240 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 859656006241 binding surface 859656006242 TPR motif; other site 859656006243 TPR repeat; Region: TPR_11; pfam13414 859656006244 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 859656006245 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 859656006246 substrate binding site [chemical binding]; other site 859656006247 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 859656006248 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 859656006249 substrate binding site [chemical binding]; other site 859656006250 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 859656006251 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 859656006252 putative active site [active] 859656006253 putative metal binding site [ion binding]; other site 859656006254 serine O-acetyltransferase; Region: cysE; TIGR01172 859656006255 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 859656006256 trimer interface [polypeptide binding]; other site 859656006257 active site 859656006258 substrate binding site [chemical binding]; other site 859656006259 CoA binding site [chemical binding]; other site 859656006260 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 859656006261 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 859656006262 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 859656006263 active site 859656006264 dimerization interface [polypeptide binding]; other site 859656006265 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 859656006266 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 859656006267 non-specific DNA binding site [nucleotide binding]; other site 859656006268 salt bridge; other site 859656006269 sequence-specific DNA binding site [nucleotide binding]; other site 859656006270 Cupin domain; Region: Cupin_2; cl09118 859656006271 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 859656006272 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 859656006273 catalytic triad [active] 859656006274 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 859656006275 MOSC domain; Region: MOSC; pfam03473 859656006276 3-alpha domain; Region: 3-alpha; pfam03475 859656006277 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 859656006278 dimer interface [polypeptide binding]; other site 859656006279 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 859656006280 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 859656006281 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 859656006282 dimer interface [polypeptide binding]; other site 859656006283 putative CheW interface [polypeptide binding]; other site 859656006284 Cache domain; Region: Cache_2; cl07034 859656006285 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 859656006286 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 859656006287 dimer interface [polypeptide binding]; other site 859656006288 putative CheW interface [polypeptide binding]; other site 859656006289 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 859656006290 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 859656006291 active site 859656006292 catalytic tetrad [active] 859656006293 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 859656006294 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 859656006295 putative substrate translocation pore; other site 859656006296 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859656006297 Helix-turn-helix domains; Region: HTH; cl00088 859656006298 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 859656006299 dimerization interface [polypeptide binding]; other site 859656006300 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 859656006301 MutS domain I; Region: MutS_I; pfam01624 859656006302 MutS domain II; Region: MutS_II; pfam05188 859656006303 MutS family domain IV; Region: MutS_IV; pfam05190 859656006304 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 859656006305 Walker A/P-loop; other site 859656006306 ATP binding site [chemical binding]; other site 859656006307 Q-loop/lid; other site 859656006308 ABC transporter signature motif; other site 859656006309 Walker B; other site 859656006310 D-loop; other site 859656006311 H-loop/switch region; other site 859656006312 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 859656006313 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 859656006314 Uncharacterized conserved protein [Function unknown]; Region: COG2850 859656006315 JmjC domain, hydroxylase; Region: JmjC; cl15814 859656006316 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 859656006317 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 859656006318 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 859656006319 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 859656006320 dihydrodipicolinate synthase; Region: dapA; TIGR00674 859656006321 dimer interface [polypeptide binding]; other site 859656006322 active site 859656006323 catalytic residue [active] 859656006324 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 859656006325 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 859656006326 active site 859656006327 HIGH motif; other site 859656006328 dimer interface [polypeptide binding]; other site 859656006329 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 859656006330 active site 859656006331 KMSKS motif; other site 859656006332 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 859656006333 active site 859656006334 putative substrate binding region [chemical binding]; other site 859656006335 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 859656006336 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 859656006337 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 859656006338 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656006339 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 859656006340 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 859656006341 Domain of unknown function (DUF4166); Region: DUF4166; pfam13761 859656006342 Protein of unknown function, DUF393; Region: DUF393; cl01136 859656006343 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 859656006344 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 859656006345 nucleophilic elbow; other site 859656006346 catalytic triad; other site 859656006347 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 859656006348 dinuclear metal binding motif [ion binding]; other site 859656006349 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 859656006350 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 859656006351 trimer interface [polypeptide binding]; other site 859656006352 putative metal binding site [ion binding]; other site 859656006353 Disulfide bond chaperones of the HSP33 family [Posttranslational modification, protein turnover, chaperones]; Region: COG1281 859656006354 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 859656006355 dimerization interface [polypeptide binding]; other site 859656006356 domain crossover interface; other site 859656006357 redox-dependent activation switch; other site 859656006358 Septum formation initiator; Region: DivIC; cl11433 859656006359 enolase; Provisional; Region: eno; PRK00077 859656006360 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 859656006361 dimer interface [polypeptide binding]; other site 859656006362 metal binding site [ion binding]; metal-binding site 859656006363 substrate binding pocket [chemical binding]; other site 859656006364 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 859656006365 NeuB family; Region: NeuB; cl00496 859656006366 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 859656006367 CTP synthetase; Validated; Region: pyrG; PRK05380 859656006368 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 859656006369 Catalytic site [active] 859656006370 active site 859656006371 UTP binding site [chemical binding]; other site 859656006372 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 859656006373 active site 859656006374 putative oxyanion hole; other site 859656006375 catalytic triad [active] 859656006376 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 859656006377 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 859656006378 Bacterial proteasome, beta subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that...; Region: proteasome_beta_bacterial; cd03765 859656006379 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 859656006380 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 859656006381 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 859656006382 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; cl00980 859656006383 Uncharacterized conserved protein [Function unknown]; Region: COG2308 859656006384 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; pfam04174 859656006385 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 859656006386 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 859656006387 Competence protein; Region: Competence; cl00471 859656006388 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 859656006389 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 859656006390 active site 859656006391 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 859656006392 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 859656006393 Walker A/P-loop; other site 859656006394 ATP binding site [chemical binding]; other site 859656006395 Q-loop/lid; other site 859656006396 ABC transporter signature motif; other site 859656006397 Walker B; other site 859656006398 D-loop; other site 859656006399 H-loop/switch region; other site 859656006400 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 859656006401 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 859656006402 FtsX-like permease family; Region: FtsX; cl15850 859656006403 Sulfatase; Region: Sulfatase; cl10460 859656006404 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 859656006405 DHH family; Region: DHH; pfam01368 859656006406 DHHA1 domain; Region: DHHA1; pfam02272 859656006407 Ferredoxin [Energy production and conversion]; Region: COG1146 859656006408 4Fe-4S binding domain; Region: Fer4; cl02805 859656006409 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 859656006410 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 859656006411 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 859656006412 active site 859656006413 DNA binding site [nucleotide binding] 859656006414 Int/Topo IB signature motif; other site 859656006415 NlpC/P60 family; Region: NLPC_P60; cl11438 859656006416 Protein of unknown function (DUF3828); Region: DUF3828; pfam12883 859656006417 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 859656006418 active site 859656006419 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 859656006420 The lysozyme from bacteriophage lambda hydrolyses the beta-1,4-glycosidic bond between N-acetylmuramic acid (MurNAc) and N-acetylglucosamine (GlcNAc), as do other lysozymes. But unlike other lysozymes, bacteriophage lambda does not produce a reducing...; Region: bacteriophage_lambda_lysozyme; cd00736 859656006421 N-acetyl-D-glucosamine binding site [chemical binding]; other site 859656006422 catalytic residue [active] 859656006423 Phage-related protein, tail component [Function unknown]; Region: COG4733 859656006424 Putative phage tail protein; Region: Phage-tail_3; pfam13550 859656006425 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 859656006426 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 859656006427 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 859656006428 HicB family; Region: HicB; pfam05534 859656006429 Bacteriophage lambda tail assembly protein I; Region: Lambda_tail_I; cl01945 859656006430 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 859656006431 MPN+ (JAMM) motif; other site 859656006432 Zinc-binding site [ion binding]; other site 859656006433 NlpC/P60 family; Region: NLPC_P60; cl11438 859656006434 Phage minor tail protein L; Region: Phage_tail_L; cl01908 859656006435 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; cl05448 859656006436 Phage Tail Collar Domain; Region: Collar; pfam07484 859656006437 Phage-related tail fibre protein [General function prediction only]; Region: COG5301 859656006438 Phage minor tail protein; Region: Phage_min_tail; cl01940 859656006439 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 859656006440 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 859656006441 phage tail tape measure protein, lambda family; Region: tape_meas_lam_C; TIGR01541 859656006442 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 859656006443 Phage related hypothetical protein (DUF1799); Region: DUF1799; pfam08809 859656006444 Domain of unknown function (DUF1789); Region: DUF1789; pfam08748 859656006445 Phage tail protein; Region: Phage_tail_3; pfam08813 859656006446 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 859656006447 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 859656006448 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 859656006449 phage conserved hypothetical protein, phiE125 gp8 family; Region: phage_chp_gp8; TIGR02215 859656006450 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 859656006451 oligomerization interface [polypeptide binding]; other site 859656006452 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 859656006453 Phage capsid family; Region: Phage_capsid; pfam05065 859656006454 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 859656006455 oligomer interface [polypeptide binding]; other site 859656006456 active site residues [active] 859656006457 Phage-related protein [Function unknown]; Region: COG4695; cl01923 859656006458 Phage portal protein; Region: Phage_portal; pfam04860 859656006459 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 859656006460 Phage Terminase; Region: Terminase_1; pfam03354 859656006461 Phage terminase, small subunit; Region: Terminase_4; cl01525 859656006462 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 859656006463 active site 859656006464 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 859656006465 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 859656006466 sequence-specific DNA binding site [nucleotide binding]; other site 859656006467 salt bridge; other site 859656006468 Uncharacterized conserved protein (DUF2303); Region: DUF2303; cl02338 859656006469 deoxynucleoside monophosphate kinase; Provisional; Region: 1; PHA02575 859656006470 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 859656006471 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 859656006472 cofactor binding site; other site 859656006473 DNA binding site [nucleotide binding] 859656006474 substrate interaction site [chemical binding]; other site 859656006475 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 859656006476 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 859656006477 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 859656006478 Transcriptional regulators [Transcription]; Region: MarR; COG1846 859656006479 Helix-turn-helix domains; Region: HTH; cl00088 859656006480 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 859656006481 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 859656006482 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 859656006483 putative dimerization interface [polypeptide binding]; other site 859656006484 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 859656006485 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 859656006486 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 859656006487 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 859656006488 non-specific DNA binding site [nucleotide binding]; other site 859656006489 salt bridge; other site 859656006490 sequence-specific DNA binding site [nucleotide binding]; other site 859656006491 Membrane transport protein; Region: Mem_trans; cl09117 859656006492 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859656006493 Helix-turn-helix domains; Region: HTH; cl00088 859656006494 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_2; cd08427 859656006495 putative dimerization interface [polypeptide binding]; other site 859656006496 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 859656006497 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 859656006498 active site 859656006499 tetramer interface [polypeptide binding]; other site 859656006500 Transcriptional regulators [Transcription]; Region: FadR; COG2186 859656006501 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 859656006502 DNA-binding site [nucleotide binding]; DNA binding site 859656006503 FCD domain; Region: FCD; cl11656 859656006504 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 859656006505 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 859656006506 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 859656006507 active site 859656006508 phosphorylation site [posttranslational modification] 859656006509 intermolecular recognition site; other site 859656006510 dimerization interface [polypeptide binding]; other site 859656006511 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 859656006512 DNA binding site [nucleotide binding] 859656006513 Evidence 4 : Homologs of previously reported genes of unknown function 859656006514 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 859656006515 CHASE2 domain; Region: CHASE2; cl01732 859656006516 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 859656006517 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 859656006518 dimer interface [polypeptide binding]; other site 859656006519 phosphorylation site [posttranslational modification] 859656006520 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 859656006521 ATP binding site [chemical binding]; other site 859656006522 G-X-G motif; other site 859656006523 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4254 859656006524 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 859656006525 FecR protein; Region: FecR; pfam04773 859656006526 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 859656006527 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 859656006528 active site 859656006529 phosphorylation site [posttranslational modification] 859656006530 intermolecular recognition site; other site 859656006531 dimerization interface [polypeptide binding]; other site 859656006532 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 859656006533 DNA binding site [nucleotide binding] 859656006534 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 859656006535 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 859656006536 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 859656006537 GIY-YIG motif/motif A; other site 859656006538 active site 859656006539 catalytic site [active] 859656006540 putative DNA binding site [nucleotide binding]; other site 859656006541 metal binding site [ion binding]; metal-binding site 859656006542 UvrB/uvrC motif; Region: UVR; pfam02151 859656006543 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 859656006544 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; cl01823 859656006545 elongation factor P; Validated; Region: PRK00529 859656006546 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 859656006547 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 859656006548 RNA binding site [nucleotide binding]; other site 859656006549 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 859656006550 RNA binding site [nucleotide binding]; other site 859656006551 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 859656006552 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 859656006553 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 859656006554 active site 859656006555 hydrophilic channel; other site 859656006556 dimerization interface [polypeptide binding]; other site 859656006557 catalytic residues [active] 859656006558 active site lid [active] 859656006559 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 859656006560 Recombination protein O N terminal; Region: RecO_N; cl15812 859656006561 Recombination protein O C terminal; Region: RecO_C; pfam02565 859656006562 GTPase Era; Reviewed; Region: era; PRK00089 859656006563 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 859656006564 G1 box; other site 859656006565 GTP/Mg2+ binding site [chemical binding]; other site 859656006566 Switch I region; other site 859656006567 G2 box; other site 859656006568 Switch II region; other site 859656006569 G3 box; other site 859656006570 G4 box; other site 859656006571 G5 box; other site 859656006572 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 859656006573 ribonuclease III; Reviewed; Region: rnc; PRK00102 859656006574 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 859656006575 dimerization interface [polypeptide binding]; other site 859656006576 active site 859656006577 metal binding site [ion binding]; metal-binding site 859656006578 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 859656006579 dsRNA binding site [nucleotide binding]; other site 859656006580 signal peptidase I; Provisional; Region: PRK10861 859656006581 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 859656006582 Catalytic site [active] 859656006583 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 859656006584 GTP-binding protein LepA; Provisional; Region: PRK05433 859656006585 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 859656006586 G1 box; other site 859656006587 putative GEF interaction site [polypeptide binding]; other site 859656006588 GTP/Mg2+ binding site [chemical binding]; other site 859656006589 Switch I region; other site 859656006590 G2 box; other site 859656006591 G3 box; other site 859656006592 Switch II region; other site 859656006593 G4 box; other site 859656006594 G5 box; other site 859656006595 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 859656006596 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 859656006597 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 859656006598 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 859656006599 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 859656006600 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 859656006601 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 859656006602 protein binding site [polypeptide binding]; other site 859656006603 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 859656006604 protein binding site [polypeptide binding]; other site 859656006605 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 859656006606 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 859656006607 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseA; COG3073 859656006608 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 859656006609 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 859656006610 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 859656006611 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 859656006612 DNA binding residues [nucleotide binding] 859656006613 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 859656006614 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 859656006615 dimer interface [polypeptide binding]; other site 859656006616 active site 859656006617 Phosphopantetheine attachment site; Region: PP-binding; cl09936 859656006618 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 859656006619 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 859656006620 NAD(P) binding site [chemical binding]; other site 859656006621 homotetramer interface [polypeptide binding]; other site 859656006622 homodimer interface [polypeptide binding]; other site 859656006623 active site 859656006624 Acyl transferase domain; Region: Acyl_transf_1; cl08282 859656006625 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 859656006626 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 859656006627 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 859656006628 dimer interface [polypeptide binding]; other site 859656006629 active site 859656006630 CoA binding pocket [chemical binding]; other site 859656006631 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 859656006632 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 859656006633 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 859656006634 Maf-like protein; Region: Maf; pfam02545 859656006635 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 859656006636 active site 859656006637 dimer interface [polypeptide binding]; other site 859656006638 Predicted methyltransferases [General function prediction only]; Region: COG0313 859656006639 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 859656006640 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 859656006641 tandem repeat interface [polypeptide binding]; other site 859656006642 oligomer interface [polypeptide binding]; other site 859656006643 active site residues [active] 859656006644 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; cl00938 859656006645 iron-sulfur cluster [ion binding]; other site 859656006646 [2Fe-2S] cluster binding site [ion binding]; other site 859656006647 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 859656006648 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 859656006649 motif II; other site 859656006650 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 859656006651 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; cl09940 859656006652 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 859656006653 active site 859656006654 ribonuclease E; Reviewed; Region: rne; PRK10811 859656006655 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 859656006656 homodimer interface [polypeptide binding]; other site 859656006657 oligonucleotide binding site [chemical binding]; other site 859656006658 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 859656006659 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 859656006660 FeS/SAM binding site; other site 859656006661 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 859656006662 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 859656006663 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 859656006664 GTP binding site; other site 859656006665 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 859656006666 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 859656006667 dimer interface [polypeptide binding]; other site 859656006668 putative functional site; other site 859656006669 putative MPT binding site; other site 859656006670 RmuC family; Region: RmuC; pfam02646 859656006671 glyoxylate reductase; Reviewed; Region: PRK13243 859656006672 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656006673 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 859656006674 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 859656006675 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 859656006676 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting; Region: PncB_like; cd01401 859656006677 active site 859656006678 peptide chain release factor 2; Provisional; Region: PRK08787 859656006679 RF-1 domain; Region: RF-1; cl02875 859656006680 RF-1 domain; Region: RF-1; cl02875 859656006681 short chain dehydrogenase; Provisional; Region: PRK07023 859656006682 sepiapterin reductase (SPR)-like, classical (c) SDRs; Region: SPR-like_SDR_c; cd05367 859656006683 NADP binding site [chemical binding]; other site 859656006684 homodimer interface [polypeptide binding]; other site 859656006685 active site 859656006686 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 859656006687 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 859656006688 dimer interface [polypeptide binding]; other site 859656006689 putative anticodon binding site; other site 859656006690 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 859656006691 motif 1; other site 859656006692 active site 859656006693 motif 2; other site 859656006694 motif 3; other site 859656006695 Iron-sulphur cluster assembly; Region: Fe-S_assembly; cl01123 859656006696 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 859656006697 catalytic loop [active] 859656006698 iron binding site [ion binding]; other site 859656006699 chaperone protein HscA; Provisional; Region: hscA; PRK05183 859656006700 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 859656006701 co-chaperone HscB; Provisional; Region: hscB; PRK03578 859656006702 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; cl02542 859656006703 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 859656006704 Evidence 4 : Homologs of previously reported genes of unknown function 859656006705 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 859656006706 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 859656006707 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 859656006708 trimerization site [polypeptide binding]; other site 859656006709 active site 859656006710 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 859656006711 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 859656006712 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 859656006713 catalytic residue [active] 859656006714 Helix-turn-helix domains; Region: HTH; cl00088 859656006715 Rrf2 family protein; Region: rrf2_super; TIGR00738 859656006716 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 859656006717 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 859656006718 ligand binding site [chemical binding]; other site 859656006719 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 859656006720 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 859656006721 Walker A/P-loop; other site 859656006722 ATP binding site [chemical binding]; other site 859656006723 Q-loop/lid; other site 859656006724 ABC transporter signature motif; other site 859656006725 Walker B; other site 859656006726 D-loop; other site 859656006727 H-loop/switch region; other site 859656006728 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 859656006729 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 859656006730 TM-ABC transporter signature motif; other site 859656006731 Transcriptional regulators [Transcription]; Region: PurR; COG1609 859656006732 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 859656006733 DNA binding site [nucleotide binding] 859656006734 domain linker motif; other site 859656006735 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 859656006736 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 859656006737 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 859656006738 substrate binding site [chemical binding]; other site 859656006739 dimer interface [polypeptide binding]; other site 859656006740 ATP binding site [chemical binding]; other site 859656006741 Site-specific recombinase; Region: SpecificRecomb; cl15411 859656006742 excinuclease ABC subunit B; Provisional; Region: PRK05298 859656006743 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 859656006744 ATP binding site [chemical binding]; other site 859656006745 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 859656006746 nucleotide binding region [chemical binding]; other site 859656006747 ATP-binding site [chemical binding]; other site 859656006748 Ultra-violet resistance protein B; Region: UvrB; pfam12344 859656006749 UvrB/uvrC motif; Region: UVR; pfam02151 859656006750 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 859656006751 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 859656006752 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859656006753 homodimer interface [polypeptide binding]; other site 859656006754 catalytic residue [active] 859656006755 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 859656006756 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 859656006757 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 859656006758 Helix-turn-helix domains; Region: HTH; cl00088 859656006759 ferredoxin; Provisional; Region: PRK06991 859656006760 Putative Fe-S cluster; Region: FeS; pfam04060 859656006761 4Fe-4S binding domain; Region: Fer4; cl02805 859656006762 endonuclease III; Provisional; Region: PRK10702 859656006763 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 859656006764 minor groove reading motif; other site 859656006765 helix-hairpin-helix signature motif; other site 859656006766 substrate binding pocket [chemical binding]; other site 859656006767 active site 859656006768 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 859656006769 Nitroreductase-like family 5. 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_5; cd02148 859656006770 putative FMN binding site [chemical binding]; other site 859656006771 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 859656006772 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 859656006773 EamA-like transporter family; Region: EamA; cl01037 859656006774 EamA-like transporter family; Region: EamA; cl01037 859656006775 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 859656006776 Cytochrome c; Region: Cytochrom_C; cl11414 859656006777 Cytochrome c; Region: Cytochrom_C; cl11414 859656006778 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 859656006779 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 859656006780 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 859656006781 Walker A motif; other site 859656006782 ATP binding site [chemical binding]; other site 859656006783 Walker B motif; other site 859656006784 arginine finger; other site 859656006785 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 859656006786 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 859656006787 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 859656006788 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]; Region: COG4700 859656006789 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 859656006790 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 859656006791 putative active site [active] 859656006792 heat shock protein 90; Provisional; Region: PRK05218 859656006793 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 859656006794 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 859656006795 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 859656006796 DNA-binding site [nucleotide binding]; DNA binding site 859656006797 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 859656006798 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859656006799 homodimer interface [polypeptide binding]; other site 859656006800 catalytic residue [active] 859656006801 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 859656006802 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 859656006803 EamA-like transporter family; Region: EamA; cl01037 859656006804 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 859656006805 homotrimer interaction site [polypeptide binding]; other site 859656006806 putative active site [active] 859656006807 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 859656006808 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 859656006809 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859656006810 homodimer interface [polypeptide binding]; other site 859656006811 catalytic residue [active] 859656006812 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 859656006813 GST_N family, unknown subfamily 2; 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_2; cd03047 859656006814 putative C-terminal domain interface [polypeptide binding]; other site 859656006815 putative GSH binding site (G-site) [chemical binding]; other site 859656006816 putative dimer interface [polypeptide binding]; other site 859656006817 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 859656006818 putative N-terminal domain interface [polypeptide binding]; other site 859656006819 putative dimer interface [polypeptide binding]; other site 859656006820 putative substrate binding pocket (H-site) [chemical binding]; other site 859656006821 Evidence 4 : Homologs of previously reported genes of unknown function 859656006822 Evidence 4 : Homologs of previously reported genes of unknown function 859656006823 MASE1; Region: MASE1; pfam05231 859656006824 PAS fold; Region: PAS_3; pfam08447 859656006825 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : enzyme 859656006826 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : enzyme 859656006827 glycolate transporter; Provisional; Region: PRK09695 859656006828 L-lactate permease; Region: Lactate_perm; cl00701 859656006829 Chromate transporter; Region: Chromate_transp; pfam02417 859656006830 Chromate transporter; Region: Chromate_transp; pfam02417 859656006831 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 859656006832 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 859656006833 CAP-like domain; other site 859656006834 active site 859656006835 primary dimer interface [polypeptide binding]; other site 859656006836 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 859656006837 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 859656006838 N-acetyl-D-glucosamine binding site [chemical binding]; other site 859656006839 catalytic residue [active] 859656006840 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 859656006841 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 859656006842 ATP binding site [chemical binding]; other site 859656006843 Mg2+ binding site [ion binding]; other site 859656006844 G-X-G motif; other site 859656006845 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 859656006846 anchoring element; other site 859656006847 dimer interface [polypeptide binding]; other site 859656006848 ATP binding site [chemical binding]; other site 859656006849 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 859656006850 active site 859656006851 metal binding site [ion binding]; metal-binding site 859656006852 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 859656006853 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 859656006854 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 859656006855 ABC transporter ATPase component; Reviewed; Region: PRK11147 859656006856 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 859656006857 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 859656006858 ABC transporter; Region: ABC_tran_2; pfam12848 859656006859 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 859656006860 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 859656006861 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 859656006862 substrate binding pocket [chemical binding]; other site 859656006863 membrane-bound complex binding site; other site 859656006864 hinge residues; other site 859656006865 3-deoxy-D-manno-oct-2-ulosonic acid (Kdo) hydroxylase; Region: Kdo_hydroxy; pfam11004 859656006866 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 859656006867 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 859656006868 putative ion selectivity filter; other site 859656006869 putative pore gating glutamate residue; other site 859656006870 putative H+/Cl- coupling transport residue; other site 859656006871 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 859656006872 DEAD-like helicases superfamily; Region: DEXDc; smart00487 859656006873 ATP binding site [chemical binding]; other site 859656006874 Mg++ binding site [ion binding]; other site 859656006875 motif III; other site 859656006876 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 859656006877 nucleotide binding region [chemical binding]; other site 859656006878 ATP-binding site [chemical binding]; other site 859656006879 TIGR03440 family protein; Region: unchr_TIGR03440 859656006880 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 859656006881 probable methyltransferase; Region: TIGR03438 859656006882 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 859656006883 Integral membrane protein TerC family; Region: TerC; cl10468 859656006884 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 859656006885 hypothetical protein; Provisional; Region: PRK06815 859656006886 tetramer interface [polypeptide binding]; other site 859656006887 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859656006888 catalytic residue [active] 859656006889 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 859656006890 dimerization interface [polypeptide binding]; other site 859656006891 active site 859656006892 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 859656006893 folate binding site [chemical binding]; other site 859656006894 NADP+ binding site [chemical binding]; other site 859656006895 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 859656006896 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 859656006897 Protein of unknown function (DUF615); Region: DUF615; cl01147 859656006898 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 859656006899 MPT binding site; other site 859656006900 trimer interface [polypeptide binding]; other site 859656006901 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 859656006902 catalytic site [active] 859656006903 putative active site [active] 859656006904 putative substrate binding site [chemical binding]; other site 859656006905 dimer interface [polypeptide binding]; other site 859656006906 Peptidase family M48; Region: Peptidase_M48; cl12018 859656006907 Peptidase family M48; Region: Peptidase_M48; cl12018 859656006908 GTPase RsgA; Reviewed; Region: PRK00098 859656006909 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 859656006910 RNA binding site [nucleotide binding]; other site 859656006911 homodimer interface [polypeptide binding]; other site 859656006912 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 859656006913 GTPase/Zn-binding domain interface [polypeptide binding]; other site 859656006914 GTP/Mg2+ binding site [chemical binding]; other site 859656006915 G4 box; other site 859656006916 G5 box; other site 859656006917 G1 box; other site 859656006918 Switch I region; other site 859656006919 G2 box; other site 859656006920 G3 box; other site 859656006921 Switch II region; other site 859656006922 CobD/Cbib protein; Region: CobD_Cbib; cl00561 859656006923 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 859656006924 putative active site [active] 859656006925 putative CoA binding site [chemical binding]; other site 859656006926 nudix motif; other site 859656006927 metal binding site [ion binding]; metal-binding site 859656006928 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 859656006929 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 859656006930 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 859656006931 RimM N-terminal domain; Region: RimM; pfam01782 859656006932 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 859656006933 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 859656006934 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 859656006935 Evidence 4 : Homologs of previously reported genes of unknown function 859656006936 TM2 domain; Region: TM2; cl00984 859656006937 Evidence 4 : Homologs of previously reported genes of unknown function 859656006938 Evidence 4 : Homologs of previously reported genes of unknown function 859656006939 Evidence 4 : Homologs of previously reported genes of unknown function 859656006940 putative transposase OrfB; Reviewed; Region: PHA02517 859656006941 HTH-like domain; Region: HTH_21; pfam13276 859656006942 Integrase core domain; Region: rve; cl01316 859656006943 Integrase core domain; Region: rve_3; cl15866 859656006944 Helix-turn-helix domains; Region: HTH; cl00088 859656006945 Evidence 4 : Homologs of previously reported genes of unknown function 859656006946 putative chaperone; Provisional; Region: PRK11678 859656006947 Transposase, Mutator family; Region: Transposase_mut; pfam00872 859656006948 MULE transposase domain; Region: MULE; pfam10551 859656006949 Helix-turn-helix domains; Region: HTH; cl00088 859656006950 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 859656006951 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 859656006952 HTH-like domain; Region: HTH_21; pfam13276 859656006953 Integrase core domain; Region: rve; cl01316 859656006954 Integrase core domain; Region: rve_3; cl15866 859656006955 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : enzyme 859656006956 Evidence 4 : Homologs of previously reported genes of unknown function 859656006957 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 859656006958 Helix-turn-helix domains; Region: HTH; cl00088 859656006959 AsnC family; Region: AsnC_trans_reg; pfam01037 859656006960 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 859656006961 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 859656006962 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 859656006963 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 859656006964 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 859656006965 active site 859656006966 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 859656006967 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 859656006968 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 859656006969 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 859656006970 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 859656006971 Ligand binding site [chemical binding]; other site 859656006972 Electron transfer flavoprotein domain; Region: ETF; pfam01012 859656006973 NMT1-like family; Region: NMT1_2; cl15260 859656006974 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 859656006975 dimer interface [polypeptide binding]; other site 859656006976 conserved gate region; other site 859656006977 ABC-ATPase subunit interface; other site 859656006978 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 859656006979 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 859656006980 Walker A/P-loop; other site 859656006981 ATP binding site [chemical binding]; other site 859656006982 Q-loop/lid; other site 859656006983 ABC transporter signature motif; other site 859656006984 Walker B; other site 859656006985 D-loop; other site 859656006986 H-loop/switch region; other site 859656006987 NIL domain; Region: NIL; cl09633 859656006988 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 859656006989 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 859656006990 Transglycosylase SLT domain; Region: SLT_2; pfam13406 859656006991 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 859656006992 N-acetyl-D-glucosamine binding site [chemical binding]; other site 859656006993 cysteine synthase B; Region: cysM; TIGR01138 859656006994 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 859656006995 dimer interface [polypeptide binding]; other site 859656006996 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859656006997 catalytic residue [active] 859656006998 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 859656006999 Protein of unknown function, DUF655; Region: DUF655; pfam04919 859656007000 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 859656007001 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 859656007002 NADP binding site [chemical binding]; other site 859656007003 homopentamer interface [polypeptide binding]; other site 859656007004 substrate binding site [chemical binding]; other site 859656007005 active site 859656007006 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 859656007007 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 859656007008 putative ribose interaction site [chemical binding]; other site 859656007009 putative ADP binding site [chemical binding]; other site 859656007010 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 859656007011 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656007012 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 859656007013 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656007014 tetratricopeptide repeat protein; Provisional; Region: PRK11788 859656007015 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 859656007016 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 859656007017 binding surface 859656007018 TPR motif; other site 859656007019 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 859656007020 IHF dimer interface [polypeptide binding]; other site 859656007021 IHF - DNA interface [nucleotide binding]; other site 859656007022 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 859656007023 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 859656007024 RNA binding site [nucleotide binding]; other site 859656007025 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 859656007026 RNA binding site [nucleotide binding]; other site 859656007027 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 859656007028 RNA binding site [nucleotide binding]; other site 859656007029 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 859656007030 RNA binding site [nucleotide binding]; other site 859656007031 S1_RPS1_repeat_ec5: 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_ec5; cd05690 859656007032 RNA binding site [nucleotide binding]; other site 859656007033 S1_RPS1_repeat_ec6: 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_ec6; cd05691 859656007034 RNA binding site [nucleotide binding]; other site 859656007035 cytidylate kinase; Provisional; Region: cmk; PRK00023 859656007036 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 859656007037 CMP-binding site; other site 859656007038 The sites determining sugar specificity; other site 859656007039 3-phosphoshikimate 1-carboxyvinyltransferase; Region: PLN02338 859656007040 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 859656007041 hinge; other site 859656007042 active site 859656007043 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656007044 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 859656007045 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 859656007046 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859656007047 homodimer interface [polypeptide binding]; other site 859656007048 catalytic residue [active] 859656007049 Chorismate mutase type II; Region: CM_2; cl00693 859656007050 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 859656007051 Prephenate dehydratase; Region: PDT; pfam00800 859656007052 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 859656007053 putative L-Phe binding site [chemical binding]; other site 859656007054 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 859656007055 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 859656007056 homodimer interface [polypeptide binding]; other site 859656007057 substrate-cofactor binding pocket; other site 859656007058 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859656007059 catalytic residue [active] 859656007060 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 859656007061 DNA gyrase subunit A; Validated; Region: PRK05560 859656007062 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 859656007063 CAP-like domain; other site 859656007064 active site 859656007065 primary dimer interface [polypeptide binding]; other site 859656007066 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 859656007067 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 859656007068 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 859656007069 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 859656007070 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 859656007071 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 859656007072 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 859656007073 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 859656007074 ligand binding site [chemical binding]; other site 859656007075 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 859656007076 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 859656007077 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 859656007078 S-adenosylmethionine binding site [chemical binding]; other site 859656007079 phosphoglycolate phosphatase; Provisional; Region: PRK13222 859656007080 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 859656007081 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 859656007082 motif II; other site 859656007083 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 859656007084 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 859656007085 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 859656007086 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 859656007087 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 859656007088 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; some contain an N-terminal GntR family winged HTH DNA-binding domain; Region: SRPBCC_CalC_Aha1-like_GntR-HTH; cd08893 859656007089 putative hydrophobic ligand binding site [chemical binding]; other site 859656007090 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 859656007091 dimerization interface [polypeptide binding]; other site 859656007092 putative DNA binding site [nucleotide binding]; other site 859656007093 putative Zn2+ binding site [ion binding]; other site 859656007094 LysR family transcriptional regulator; Provisional; Region: PRK14997 859656007095 Helix-turn-helix domains; Region: HTH; cl00088 859656007096 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 859656007097 putative effector binding pocket; other site 859656007098 dimerization interface [polypeptide binding]; other site 859656007099 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656007100 NAD(P) binding site [chemical binding]; other site 859656007101 active site 859656007102 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 859656007103 FMN binding site [chemical binding]; other site 859656007104 active site 859656007105 substrate binding site [chemical binding]; other site 859656007106 catalytic residue [active] 859656007107 Cupin domain; Region: Cupin_2; cl09118 859656007108 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 859656007109 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type ph : phenotype 859656007110 DDE superfamily endonuclease; Region: DDE_4; cl15789 859656007111 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type ph : phenotype 859656007112 Endoglucanase C-terminal domain/subunit and related proteins [Carbohydrate transport and metabolism]; Region: COG4305 859656007113 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 859656007114 glutathionine S-transferase; Provisional; Region: PRK10542 859656007115 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 859656007116 C-terminal domain interface [polypeptide binding]; other site 859656007117 GSH binding site (G-site) [chemical binding]; other site 859656007118 dimer interface [polypeptide binding]; other site 859656007119 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 859656007120 dimer interface [polypeptide binding]; other site 859656007121 N-terminal domain interface [polypeptide binding]; other site 859656007122 substrate binding pocket (H-site) [chemical binding]; other site 859656007123 Helix-turn-helix domains; Region: HTH; cl00088 859656007124 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 859656007125 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 859656007126 Ligand Binding Site [chemical binding]; other site 859656007127 LysE type translocator; Region: LysE; cl00565 859656007128 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 859656007129 Moco binding site; other site 859656007130 metal coordination site [ion binding]; other site 859656007131 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 859656007132 CPxP motif; other site 859656007133 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 859656007134 nudix motif; other site 859656007135 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 859656007136 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 859656007137 tetramer interface [polypeptide binding]; other site 859656007138 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859656007139 catalytic residue [active] 859656007140 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 859656007141 active site 1 [active] 859656007142 dimer interface [polypeptide binding]; other site 859656007143 hexamer interface [polypeptide binding]; other site 859656007144 active site 2 [active] 859656007145 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 859656007146 intersubunit interface [polypeptide binding]; other site 859656007147 active site 859656007148 Zn2+ binding site [ion binding]; other site 859656007149 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 859656007150 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859656007151 Helix-turn-helix domains; Region: HTH; cl00088 859656007152 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 859656007153 dimerization interface [polypeptide binding]; other site 859656007154 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 859656007155 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 859656007156 active site residues [active] 859656007157 dimer interface [polypeptide binding]; other site 859656007158 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 859656007159 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 859656007160 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 859656007161 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 859656007162 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 859656007163 N-terminal plug; other site 859656007164 ligand-binding site [chemical binding]; other site 859656007165 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 859656007166 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 859656007167 Evidence 4 : Homologs of previously reported genes of unknown function 859656007168 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 859656007169 Evidence 4 : Homologs of previously reported genes of unknown function 859656007170 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : enzyme 859656007171 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 859656007172 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 859656007173 motif 1; other site 859656007174 active site 859656007175 motif 2; other site 859656007176 motif 3; other site 859656007177 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 859656007178 DHHA1 domain; Region: DHHA1; pfam02272 859656007179 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 859656007180 CoA-transferase family III; Region: CoA_transf_3; pfam02515 859656007181 Predicted membrane protein (DUF2214); Region: DUF2214; cl01427 859656007182 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 859656007183 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 859656007184 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 859656007185 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 859656007186 active site 859656007187 HIGH motif; other site 859656007188 nucleotide binding site [chemical binding]; other site 859656007189 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 859656007190 KMSKS motif; other site 859656007191 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 859656007192 YceI-like domain; Region: YceI; cl01001 859656007193 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; cl09940 859656007194 MAPEG family; Region: MAPEG; cl09190 859656007195 Protein of unknown function (DUF3999); Region: DUF3999; pfam13163 859656007196 Protein of unknown function (DUF3999); Region: DUF3999; pfam13163 859656007197 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 859656007198 YaeQ protein; Region: YaeQ; cl01913 859656007199 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 859656007200 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 859656007201 putative active site pocket [active] 859656007202 dimerization interface [polypeptide binding]; other site 859656007203 putative catalytic residue [active] 859656007204 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 859656007205 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 859656007206 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 859656007207 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08314 859656007208 AMP-binding enzyme; Region: AMP-binding; cl15778 859656007209 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 859656007210 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 859656007211 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 859656007212 catalytic residues [active] 859656007213 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 859656007214 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 859656007215 catalytic residues [active] 859656007216 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 859656007217 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 859656007218 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 859656007219 dimer interface [polypeptide binding]; other site 859656007220 active site 859656007221 heme binding site [chemical binding]; other site 859656007222 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 859656007223 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 859656007224 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 859656007225 putative ATP binding site [chemical binding]; other site 859656007226 putative substrate interface [chemical binding]; other site 859656007227 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 859656007228 AsmA-like C-terminal region; Region: AsmA_2; cl15864 859656007229 Cytochrome c; Region: Cytochrom_C; cl11414 859656007230 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 859656007231 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 859656007232 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 859656007233 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 859656007234 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 859656007235 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 859656007236 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 859656007237 S-adenosylmethionine binding site [chemical binding]; other site 859656007238 Protein of unknown function DUF72; Region: DUF72; cl00777 859656007239 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 859656007240 Flavin Reductases; Region: FlaRed; cl00801 859656007241 Protein of unknown function (DUF3079); Region: DUF3079; pfam11278 859656007242 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 859656007243 Helix-turn-helix domains; Region: HTH; cl00088 859656007244 AsnC family; Region: AsnC_trans_reg; pfam01037 859656007245 Putative cyclase; Region: Cyclase; cl00814 859656007246 kynureninase; Region: kynureninase; TIGR01814 859656007247 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 859656007248 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 859656007249 catalytic residue [active] 859656007250 Tryptophan 2,3-dioxygenase; Region: Trp_dioxygenase; cl03994 859656007251 Transcriptional regulator [Transcription]; Region: IclR; COG1414 859656007252 Helix-turn-helix domains; Region: HTH; cl00088 859656007253 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 859656007254 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 859656007255 FAD binding site [chemical binding]; other site 859656007256 substrate binding pocket [chemical binding]; other site 859656007257 catalytic base [active] 859656007258 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 859656007259 Sulfate transporter family; Region: Sulfate_transp; cl15842 859656007260 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 859656007261 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 859656007262 dimer interface [polypeptide binding]; other site 859656007263 decamer (pentamer of dimers) interface [polypeptide binding]; other site 859656007264 catalytic triad [active] 859656007265 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 859656007266 Protein of unknown function (DUF1469); Region: DUF1469; cl12095 859656007267 Protein of unknown function (DUF3318); Region: DUF3318; pfam11780 859656007268 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 859656007269 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 859656007270 Walker A/P-loop; other site 859656007271 ATP binding site [chemical binding]; other site 859656007272 Q-loop/lid; other site 859656007273 ABC transporter signature motif; other site 859656007274 Walker B; other site 859656007275 D-loop; other site 859656007276 H-loop/switch region; other site 859656007277 Uncharacterized protein family (UPF0014); Region: UPF0014; cl00424 859656007278 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 859656007279 nudix motif; other site 859656007280 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 859656007281 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 859656007282 active site 859656007283 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; cl16918 859656007284 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 859656007285 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 859656007286 active site 859656007287 substrate binding site [chemical binding]; other site 859656007288 Mg2+ binding site [ion binding]; other site 859656007289 NeuB family; Region: NeuB; cl00496 859656007290 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 859656007291 Predicted transporter component [General function prediction only]; Region: COG2391 859656007292 Sulphur transport; Region: Sulf_transp; cl01018 859656007293 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 859656007294 Ligand Binding Site [chemical binding]; other site 859656007295 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 859656007296 Tetratricopeptide repeat; Region: TPR_6; pfam13174 859656007297 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 859656007298 ligand binding site [chemical binding]; other site 859656007299 translocation protein TolB; Provisional; Region: tolB; PRK02889 859656007300 TolB amino-terminal domain; Region: TolB_N; cl00639 859656007301 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 859656007302 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 859656007303 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 859656007304 Gram-negative bacterial tonB protein; Region: TonB; cl10048 859656007305 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 859656007306 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 859656007307 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 859656007308 active site 859656007309 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656007310 NAD(P) binding site [chemical binding]; other site 859656007311 active site 859656007312 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 859656007313 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 859656007314 dimer interface [polypeptide binding]; other site 859656007315 active site 859656007316 glycine-pyridoxal phosphate binding site [chemical binding]; other site 859656007317 folate binding site [chemical binding]; other site 859656007318 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 859656007319 ATP cone domain; Region: ATP-cone; pfam03477 859656007320 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 859656007321 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 859656007322 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 859656007323 PilX N-terminal; Region: PilX_N; pfam14341 859656007324 Type IV pilus assembly protein PilX C-term; Region: PilX; pfam13681 859656007325 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 859656007326 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 859656007327 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 859656007328 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 859656007329 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 859656007330 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 859656007331 Type II transport protein GspH; Region: GspH; pfam12019 859656007332 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 859656007333 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 859656007334 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 859656007335 Type IV pilus assembly protein PilX C-term; Region: PilX; pfam13681 859656007336 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 859656007337 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 859656007338 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 859656007339 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 859656007340 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 859656007341 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 859656007342 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 859656007343 catalytic motif [active] 859656007344 Zn binding site [ion binding]; other site 859656007345 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 859656007346 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 859656007347 Lumazine binding domain; Region: Lum_binding; pfam00677 859656007348 Lumazine binding domain; Region: Lum_binding; pfam00677 859656007349 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 859656007350 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 859656007351 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 859656007352 dimerization interface [polypeptide binding]; other site 859656007353 active site 859656007354 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 859656007355 homopentamer interface [polypeptide binding]; other site 859656007356 active site 859656007357 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 859656007358 aminotransferase; Validated; Region: PRK07337 859656007359 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 859656007360 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859656007361 homodimer interface [polypeptide binding]; other site 859656007362 catalytic residue [active] 859656007363 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 859656007364 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 859656007365 N-acetyl-D-glucosamine binding site [chemical binding]; other site 859656007366 catalytic residue [active] 859656007367 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 859656007368 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 859656007369 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 859656007370 tetramerization interface [polypeptide binding]; other site 859656007371 NAD(P) binding site [chemical binding]; other site 859656007372 catalytic residues [active] 859656007373 Putative ParB-like nuclease; Region: ParBc_2; pfam08857 859656007374 Domain of unknown function (DUF4337); Region: DUF4337; pfam14235 859656007375 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 859656007376 active site 859656007377 catalytic triad [active] 859656007378 dimer interface [polypeptide binding]; other site 859656007379 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 859656007380 S-adenosylmethionine binding site [chemical binding]; other site 859656007381 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 859656007382 active site 859656007383 FMN binding site [chemical binding]; other site 859656007384 substrate binding site [chemical binding]; other site 859656007385 homotetramer interface [polypeptide binding]; other site 859656007386 catalytic residue [active] 859656007387 Bacitracin resistance protein BacA; Region: BacA; cl00858 859656007388 Protein of unknown function (DUF1439); Region: DUF1439; cl06345 859656007389 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 859656007390 Helix-turn-helix domains; Region: HTH; cl00088 859656007391 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 859656007392 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 859656007393 S-adenosylmethionine binding site [chemical binding]; other site 859656007394 Member of the Rhodanese Homology Domain superfamily, subgroup 2. Subgroup 2 includes uncharacterized putative rhodanese-related domains; Region: RHOD_2; cd01528 859656007395 active site residue [active] 859656007396 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 859656007397 META domain; Region: META; cl01245 859656007398 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 859656007399 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 859656007400 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 859656007401 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 859656007402 putative active site [active] 859656007403 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 859656007404 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 859656007405 active site 859656007406 substrate binding site [chemical binding]; other site 859656007407 metal binding site [ion binding]; metal-binding site 859656007408 Chain length determinant protein; Region: Wzz; cl15801 859656007409 This subfamily is composed of uncharacterized bacterial glycosyltransferases in the MraY-like family. This family contains both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases, which...; Region: GT_MraY_like; cd06912 859656007410 Mg++ binding site [ion binding]; other site 859656007411 putative catalytic motif [active] 859656007412 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 859656007413 Probable Catalytic site; other site 859656007414 metal-binding site 859656007415 RfbF is a putative dTDP-rhamnosyl transferase; Region: GT2_RfbF_like; cd02526 859656007416 L-rhamnosyltransferase; Region: rhamnosyltran; TIGR01556 859656007417 Ligand binding site; other site 859656007418 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 859656007419 Cupin domain; Region: Cupin_2; cl09118 859656007420 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 859656007421 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 859656007422 substrate binding site; other site 859656007423 tetramer interface; other site 859656007424 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 859656007425 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 859656007426 NADP binding site [chemical binding]; other site 859656007427 active site 859656007428 putative substrate binding site [chemical binding]; other site 859656007429 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 859656007430 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 859656007431 NAD binding site [chemical binding]; other site 859656007432 substrate binding site [chemical binding]; other site 859656007433 homodimer interface [polypeptide binding]; other site 859656007434 active site 859656007435 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 859656007436 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 859656007437 active site 859656007438 metal binding site [ion binding]; metal-binding site 859656007439 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 859656007440 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 859656007441 putative acyl-acceptor binding pocket; other site 859656007442 dihydroorotase; Provisional; Region: PRK07627 859656007443 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 859656007444 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 859656007445 active site 859656007446 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 859656007447 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 859656007448 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656007449 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 859656007450 active site 859656007451 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 859656007452 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 859656007453 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 859656007454 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 859656007455 RNA binding surface [nucleotide binding]; other site 859656007456 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 859656007457 active site 859656007458 uracil binding [chemical binding]; other site 859656007459 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 859656007460 DNA photolyase; Region: DNA_photolyase; pfam00875 859656007461 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 859656007462 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 859656007463 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 859656007464 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 859656007465 putative binding surface; other site 859656007466 active site 859656007467 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 859656007468 Uncharacterized protein conserved in bacteria with the myosin-like domain [Function unknown]; Region: COG4372 859656007469 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 859656007470 ATP binding site [chemical binding]; other site 859656007471 Mg2+ binding site [ion binding]; other site 859656007472 G-X-G motif; other site 859656007473 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 859656007474 Response regulator receiver domain; Region: Response_reg; pfam00072 859656007475 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 859656007476 active site 859656007477 phosphorylation site [posttranslational modification] 859656007478 intermolecular recognition site; other site 859656007479 dimerization interface [polypeptide binding]; other site 859656007480 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 859656007481 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 859656007482 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 859656007483 dimer interface [polypeptide binding]; other site 859656007484 putative CheW interface [polypeptide binding]; other site 859656007485 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cd00588 859656007486 Response regulator receiver domain; Region: Response_reg; pfam00072 859656007487 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 859656007488 active site 859656007489 phosphorylation site [posttranslational modification] 859656007490 intermolecular recognition site; other site 859656007491 dimerization interface [polypeptide binding]; other site 859656007492 Response regulator receiver domain; Region: Response_reg; pfam00072 859656007493 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 859656007494 active site 859656007495 phosphorylation site [posttranslational modification] 859656007496 intermolecular recognition site; other site 859656007497 dimerization interface [polypeptide binding]; other site 859656007498 Rubredoxin [Energy production and conversion]; Region: COG1773 859656007499 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 859656007500 iron binding site [ion binding]; other site 859656007501 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 859656007502 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 859656007503 inhibitor-cofactor binding pocket; inhibition site 859656007504 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859656007505 catalytic residue [active] 859656007506 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 859656007507 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 859656007508 dimer interface [polypeptide binding]; other site 859656007509 active site 859656007510 catalytic residue [active] 859656007511 LemA family; Region: LemA; cl00742 859656007512 Repair protein; Region: Repair_PSII; cl01535 859656007513 Repair protein; Region: Repair_PSII; cl01535 859656007514 Flp/Fap pilin component; Region: Flp_Fap; cl01585 859656007515 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 859656007516 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 859656007517 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 859656007518 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 859656007519 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 859656007520 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 859656007521 active site 859656007522 phosphorylation site [posttranslational modification] 859656007523 intermolecular recognition site; other site 859656007524 dimerization interface [polypeptide binding]; other site 859656007525 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 859656007526 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 859656007527 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 859656007528 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 859656007529 ATP binding site [chemical binding]; other site 859656007530 Walker A motif; other site 859656007531 hexamer interface [polypeptide binding]; other site 859656007532 Walker B motif; other site 859656007533 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 859656007534 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 859656007535 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 859656007536 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 859656007537 TadE-like protein; Region: TadE; cl10688 859656007538 TadE-like protein; Region: TadE; cl10688 859656007539 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 859656007540 Protein of unknown function (DUF2029); Region: DUF2029; cl09812 859656007541 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 859656007542 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 859656007543 Ligand binding site; other site 859656007544 Putative Catalytic site; other site 859656007545 DXD motif; other site 859656007546 trigger factor; Region: tig; TIGR00115 859656007547 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 859656007548 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656007549 NAD/NADP octopine/nopaline dehydrogenase, alpha-helical domain; Region: Octopine_DH; pfam02317 859656007550 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 859656007551 NAD/NADP octopine/nopaline dehydrogenase, alpha-helical domain; Region: Octopine_DH; pfam02317 859656007552 Methyltransferase domain; Region: Methyltransf_31; pfam13847 859656007553 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 859656007554 S-adenosylmethionine binding site [chemical binding]; other site 859656007555 GtrA-like protein; Region: GtrA; cl00971 859656007556 Peptidase family M48; Region: Peptidase_M48; cl12018 859656007557 Bacterial protein of unknown function (DUF898); Region: DUF898; cl01738 859656007558 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 859656007559 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 859656007560 ring oligomerisation interface [polypeptide binding]; other site 859656007561 ATP/Mg binding site [chemical binding]; other site 859656007562 stacking interactions; other site 859656007563 hinge regions; other site 859656007564 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 859656007565 oligomerisation interface [polypeptide binding]; other site 859656007566 mobile loop; other site 859656007567 roof hairpin; other site 859656007568 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 859656007569 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 859656007570 Helix-turn-helix domains; Region: HTH; cl00088 859656007571 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 859656007572 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656007573 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 859656007574 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 859656007575 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 859656007576 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 859656007577 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 859656007578 NAD(P) binding site [chemical binding]; other site 859656007579 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 859656007580 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859656007581 Helix-turn-helix domains; Region: HTH; cl00088 859656007582 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 859656007583 putative effector binding pocket; other site 859656007584 putative dimerization interface [polypeptide binding]; other site 859656007585 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 859656007586 catalytic triad [active] 859656007587 conserved cis-peptide bond; other site 859656007588 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 859656007589 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 859656007590 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 859656007591 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 859656007592 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 859656007593 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 859656007594 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 859656007595 potential catalytic triad [active] 859656007596 conserved cys residue [active] 859656007597 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 859656007598 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 859656007599 putative NAD(P) binding site [chemical binding]; other site 859656007600 putative substrate binding site [chemical binding]; other site 859656007601 catalytic Zn binding site [ion binding]; other site 859656007602 structural Zn binding site [ion binding]; other site 859656007603 dimer interface [polypeptide binding]; other site 859656007604 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 859656007605 Helix-turn-helix domains; Region: HTH; cl00088 859656007606 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_6; cd08475 859656007607 putative effector binding pocket; other site 859656007608 putative dimerization interface [polypeptide binding]; other site 859656007609 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 859656007610 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 859656007611 trimer interface [polypeptide binding]; other site 859656007612 eyelet of channel; other site 859656007613 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 859656007614 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 859656007615 putative substrate translocation pore; other site 859656007616 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 859656007617 aconitate hydratase; Provisional; Region: acnA; PRK12881 859656007618 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 859656007619 substrate binding site [chemical binding]; other site 859656007620 ligand binding site [chemical binding]; other site 859656007621 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 859656007622 substrate binding site [chemical binding]; other site 859656007623 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 859656007624 DNA-binding site [nucleotide binding]; DNA binding site 859656007625 Transcriptional regulators [Transcription]; Region: GntR; COG1802 859656007626 FCD domain; Region: FCD; cl11656 859656007627 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 859656007628 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 859656007629 substrate binding pocket [chemical binding]; other site 859656007630 membrane-bound complex binding site; other site 859656007631 hinge residues; other site 859656007632 Transposase, Mutator family; Region: Transposase_mut; pfam00872 859656007633 EamA-like transporter family; Region: EamA; cl01037 859656007634 EamA-like transporter family; Region: EamA; cl01037 859656007635 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 859656007636 non-specific DNA binding site [nucleotide binding]; other site 859656007637 salt bridge; other site 859656007638 sequence-specific DNA binding site [nucleotide binding]; other site 859656007639 Integrase core domain; Region: rve; cl01316 859656007640 AAA domain; Region: AAA_22; pfam13401 859656007641 TniQ; Region: TniQ; pfam06527 859656007642 Fic/DOC family; Region: Fic; cl00960 859656007643 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 859656007644 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 859656007645 non-specific DNA binding site [nucleotide binding]; other site 859656007646 salt bridge; other site 859656007647 sequence-specific DNA binding site [nucleotide binding]; other site 859656007648 Restriction endonuclease; Region: Mrr_cat; cl00516 859656007649 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 859656007650 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pcp : cell process 859656007651 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 859656007652 Ligand Binding Site [chemical binding]; other site 859656007653 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 859656007654 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 859656007655 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 859656007656 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 859656007657 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type lp : lipoprotein 859656007658 Putative exonuclease, RdgC; Region: RdgC; cl01122 859656007659 Transposase, Mutator family; Region: Transposase_mut; pfam00872 859656007660 Domain of unknown function (DUF4288); Region: DUF4288; pfam14119 859656007661 Inclusion body protein; Region: PixA; pfam12306 859656007662 ApbE family; Region: ApbE; cl00643 859656007663 FMN-binding domain; Region: FMN_bind; cl01081 859656007664 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 859656007665 Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; PubMedId : 15597743; Product type ph : phenotype 859656007666 YopJ Serine/Threonine acetyltransferase; Region: YopJ; cl07849 859656007667 short chain dehydrogenase; Provisional; Region: PRK06197 859656007668 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 859656007669 putative NAD(P) binding site [chemical binding]; other site 859656007670 active site 859656007671 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656007672 NAD(P) binding site [chemical binding]; other site 859656007673 active site 859656007674 Helix-turn-helix domains; Region: HTH; cl00088 859656007675 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 859656007676 putative C-terminal domain interface [polypeptide binding]; other site 859656007677 putative GSH binding site (G-site) [chemical binding]; other site 859656007678 putative dimer interface [polypeptide binding]; other site 859656007679 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 859656007680 dimer interface [polypeptide binding]; other site 859656007681 N-terminal domain interface [polypeptide binding]; other site 859656007682 putative substrate binding pocket (H-site) [chemical binding]; other site 859656007683 Cache domain; Region: Cache_1; pfam02743 859656007684 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 859656007685 dimerization interface [polypeptide binding]; other site 859656007686 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 859656007687 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 859656007688 dimer interface [polypeptide binding]; other site 859656007689 putative CheW interface [polypeptide binding]; other site 859656007690 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 859656007691 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 859656007692 substrate binding site [chemical binding]; other site 859656007693 catalytic Zn binding site [ion binding]; other site 859656007694 NAD binding site [chemical binding]; other site 859656007695 structural Zn binding site [ion binding]; other site 859656007696 dimer interface [polypeptide binding]; other site 859656007697 Predicted esterase [General function prediction only]; Region: COG0627 859656007698 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 859656007699 Paraquat-inducible protein A; Region: PqiA; pfam04403 859656007700 Paraquat-inducible protein A; Region: PqiA; pfam04403 859656007701 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 859656007702 mce related protein; Region: MCE; pfam02470 859656007703 mce related protein; Region: MCE; pfam02470 859656007704 mce related protein; Region: MCE; pfam02470 859656007705 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 859656007706 Protein of unknown function (DUF330); Region: DUF330; cl01135 859656007707 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 859656007708 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 859656007709 DNA-binding site [nucleotide binding]; DNA binding site 859656007710 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 859656007711 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859656007712 homodimer interface [polypeptide binding]; other site 859656007713 catalytic residue [active] 859656007714 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 859656007715 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 859656007716 N-terminal plug; other site 859656007717 ligand-binding site [chemical binding]; other site 859656007718 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 859656007719 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 859656007720 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 859656007721 Zn2+ binding site [ion binding]; other site 859656007722 Mg2+ binding site [ion binding]; other site 859656007723 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 859656007724 Helix-turn-helix domains; Region: HTH; cl00088 859656007725 hypothetical protein; Provisional; Region: PRK07538 859656007726 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656007727 amidase; Provisional; Region: PRK07056 859656007728 Amidase; Region: Amidase; cl11426 859656007729 PAS domain S-box; Region: sensory_box; TIGR00229 859656007730 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 859656007731 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 859656007732 GAF domain; Region: GAF; cl15785 859656007733 PAS fold; Region: PAS; pfam00989 859656007734 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 859656007735 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 859656007736 metal binding site [ion binding]; metal-binding site 859656007737 active site 859656007738 I-site; other site 859656007739 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 859656007740 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 859656007741 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 859656007742 active site 859656007743 Protein of unknown function (DUF1045); Region: DUF1045; cl15435 859656007744 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 859656007745 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 859656007746 putative DNA binding site [nucleotide binding]; other site 859656007747 putative homodimer interface [polypeptide binding]; other site 859656007748 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 859656007749 DNA polymerase Ligase (LigD); Region: LigD_N; cl11819 859656007750 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 859656007751 active site 859656007752 DNA binding site [nucleotide binding] 859656007753 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 859656007754 DNA binding site [nucleotide binding] 859656007755 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 859656007756 nucleotide binding site [chemical binding]; other site 859656007757 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 859656007758 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 859656007759 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 859656007760 Triacylglycerol lipase-like subfamily of the SGNH 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 hydrolases; its...; Region: Triacylglycerol_lipase_like; cd01847 859656007761 active site 859656007762 catalytic triad [active] 859656007763 oxyanion hole [active] 859656007764 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 859656007765 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 859656007766 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 859656007767 ATP-grasp domain; Region: ATP-grasp_4; cl03087 859656007768 AIR carboxylase; Region: AIRC; cl00310 859656007769 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 859656007770 ATP binding site [chemical binding]; other site 859656007771 active site 859656007772 substrate binding site [chemical binding]; other site 859656007773 hypothetical protein; Provisional; Region: PRK08185 859656007774 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 859656007775 intersubunit interface [polypeptide binding]; other site 859656007776 active site 859656007777 zinc binding site [ion binding]; other site 859656007778 Na+ binding site [ion binding]; other site 859656007779 pyruvate kinase; Provisional; Region: PRK05826 859656007780 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 859656007781 domain interfaces; other site 859656007782 active site 859656007783 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 859656007784 Phosphoglycerate kinase; Region: PGK; pfam00162 859656007785 substrate binding site [chemical binding]; other site 859656007786 hinge regions; other site 859656007787 ADP binding site [chemical binding]; other site 859656007788 catalytic site [active] 859656007789 Predicted permeases [General function prediction only]; Region: RarD; COG2962 859656007790 EamA-like transporter family; Region: EamA; cl01037 859656007791 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 859656007792 AzlC protein; Region: AzlC; cl00570 859656007793 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 859656007794 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 859656007795 homodimer interface [polypeptide binding]; other site 859656007796 substrate-cofactor binding pocket; other site 859656007797 catalytic residue [active] 859656007798 Zinc-finger domain; Region: zf-CHCC; cl01821 859656007799 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 859656007800 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 859656007801 putative active site [active] 859656007802 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 859656007803 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 859656007804 Protein of unknown function (DUF2946); Region: DUF2944; pfam11161 859656007805 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 859656007806 Peptidase family M48; Region: Peptidase_M48; cl12018 859656007807 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 859656007808 trimer interface [polypeptide binding]; other site 859656007809 dimer interface [polypeptide binding]; other site 859656007810 putative active site [active] 859656007811 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 859656007812 O-Antigen ligase; Region: Wzy_C; cl04850 859656007813 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 859656007814 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 859656007815 Pilin (bacterial filament); Region: Pilin; pfam00114 859656007816 Integral membrane protein TerC family; Region: TerC; cl10468 859656007817 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 859656007818 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656007819 CoA-ligase; Region: Ligase_CoA; cl02894 859656007820 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 859656007821 ATP-grasp domain; Region: ATP-grasp_4; cl03087 859656007822 CoA-ligase; Region: Ligase_CoA; cl02894 859656007823 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 859656007824 RecX family; Region: RecX; cl00936 859656007825 recombinase A; Provisional; Region: recA; PRK09354 859656007826 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 859656007827 hexamer interface [polypeptide binding]; other site 859656007828 Walker A motif; other site 859656007829 ATP binding site [chemical binding]; other site 859656007830 Walker B motif; other site 859656007831 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 859656007832 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 859656007833 active site 859656007834 phosphorylation site [posttranslational modification] 859656007835 intermolecular recognition site; other site 859656007836 dimerization interface [polypeptide binding]; other site 859656007837 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 859656007838 DNA binding site [nucleotide binding] 859656007839 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 859656007840 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 859656007841 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 859656007842 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 859656007843 dimer interface [polypeptide binding]; other site 859656007844 phosphorylation site [posttranslational modification] 859656007845 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 859656007846 ATP binding site [chemical binding]; other site 859656007847 Mg2+ binding site [ion binding]; other site 859656007848 G-X-G motif; other site 859656007849 Domain of unknown function (DUF4212); Region: DUF4212; cl01781 859656007850 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 859656007851 putative substrate translocation pore; other site 859656007852 metabolite-proton symporter; Region: 2A0106; TIGR00883 859656007853 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 859656007854 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656007855 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 859656007856 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 859656007857 active site 859656007858 phosphorylation site [posttranslational modification] 859656007859 intermolecular recognition site; other site 859656007860 dimerization interface [polypeptide binding]; other site 859656007861 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 859656007862 DNA binding site [nucleotide binding] 859656007863 LysR family transcriptional regulator; Provisional; Region: PRK14997 859656007864 Helix-turn-helix domains; Region: HTH; cl00088 859656007865 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 859656007866 putative effector binding pocket; other site 859656007867 dimerization interface [polypeptide binding]; other site 859656007868 Pirin-related protein [General function prediction only]; Region: COG1741 859656007869 Cupin domain; Region: Cupin_2; cl09118 859656007870 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 859656007871 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 859656007872 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 859656007873 DEAD-like helicases superfamily; Region: DEXDc; smart00487 859656007874 ATP binding site [chemical binding]; other site 859656007875 Mg++ binding site [ion binding]; other site 859656007876 motif III; other site 859656007877 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 859656007878 nucleotide binding region [chemical binding]; other site 859656007879 ATP-binding site [chemical binding]; other site 859656007880 Helix-turn-helix domains; Region: HTH; cl00088 859656007881 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 859656007882 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 859656007883 active site 859656007884 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 859656007885 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08261 859656007886 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656007887 NAD(P) binding site [chemical binding]; other site 859656007888 active site 859656007889 Evidence 2b : Function of strongly homologous gene; Product type e : enzyme 859656007890 Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; PubMedId : 12034706, 8107670; Product type e : enzyme 859656007891 glutaminyl-tRNA synthetase/YqeY domain fusion protein; Provisional; Region: PRK14703 859656007892 Protein of unknown function (DUF1571); Region: DUF1571; pfam07608 859656007893 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; cl01155 859656007894 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 859656007895 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 859656007896 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 859656007897 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 859656007898 FeS/SAM binding site; other site 859656007899 TRAM domain; Region: TRAM; cl01282 859656007900 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 859656007901 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 859656007902 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 859656007903 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 859656007904 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 859656007905 Transporter associated domain; Region: CorC_HlyC; cl08393 859656007906 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 859656007907 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 859656007908 putative active site [active] 859656007909 catalytic triad [active] 859656007910 putative dimer interface [polypeptide binding]; other site 859656007911 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 859656007912 dimer interface [polypeptide binding]; other site 859656007913 motif 1; other site 859656007914 active site 859656007915 motif 2; other site 859656007916 motif 3; other site 859656007917 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 859656007918 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 859656007919 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 859656007920 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 859656007921 active site 859656007922 motif I; other site 859656007923 motif II; other site 859656007924 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 859656007925 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 859656007926 putative acyl-acceptor binding pocket; other site 859656007927 Protein of unknown function DUF45; Region: DUF45; cl00636 859656007928 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 859656007929 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 859656007930 dimer interface [polypeptide binding]; other site 859656007931 active site 859656007932 metal binding site [ion binding]; metal-binding site 859656007933 glutathione binding site [chemical binding]; other site 859656007934 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 859656007935 EamA-like transporter family; Region: EamA; cl01037 859656007936 EamA-like transporter family; Region: EamA; cl01037 859656007937 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 859656007938 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 859656007939 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 859656007940 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 859656007941 SurA N-terminal domain; Region: SurA_N_3; cl07813 859656007942 PPIC-type PPIASE domain; Region: Rotamase; cl08278 859656007943 PPIC-type PPIASE domain; Region: Rotamase; cl08278 859656007944 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 859656007945 OstA-like protein; Region: OstA; cl00844 859656007946 Organic solvent tolerance protein; Region: OstA_C; pfam04453 859656007947 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 859656007948 Phosphotransferase enzyme family; Region: APH; pfam01636 859656007949 AzlC protein; Region: AzlC; cl00570 859656007950 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 859656007951 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 859656007952 Substrate binding site; other site 859656007953 metal-binding site 859656007954 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 859656007955 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 859656007956 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 859656007957 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 859656007958 metal binding site [ion binding]; metal-binding site 859656007959 active site 859656007960 I-site; other site 859656007961 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 859656007962 Aminopeptidase P, N-terminal domain; Region: AMP_N; cl08433 859656007963 proline aminopeptidase P II; Provisional; Region: PRK10879 859656007964 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 859656007965 active site 859656007966 hypothetical protein; Provisional; Region: PRK06996 859656007967 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656007968 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 859656007969 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656007970 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 859656007971 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 859656007972 FMN binding site [chemical binding]; other site 859656007973 active site 859656007974 catalytic residues [active] 859656007975 substrate binding site [chemical binding]; other site 859656007976 Helix-turn-helix domains; Region: HTH; cl00088 859656007977 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 859656007978 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 859656007979 purine monophosphate binding site [chemical binding]; other site 859656007980 dimer interface [polypeptide binding]; other site 859656007981 putative catalytic residues [active] 859656007982 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 859656007983 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 859656007984 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 859656007985 active site 859656007986 putative DNA-binding cleft [nucleotide binding]; other site 859656007987 dimer interface [polypeptide binding]; other site 859656007988 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 859656007989 Glycerophosphodiester phosphodiesterase domain of Streptomycin coelicolor (GlpQ1) and similar proteins; Region: GDPD_ScGlpQ1_like; cd08602 859656007990 putative active site [active] 859656007991 catalytic site [active] 859656007992 putative metal binding site [ion binding]; other site 859656007993 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 859656007994 RuvA N terminal domain; Region: RuvA_N; pfam01330 859656007995 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 859656007996 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 859656007997 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 859656007998 Walker A motif; other site 859656007999 ATP binding site [chemical binding]; other site 859656008000 Walker B motif; other site 859656008001 arginine finger; other site 859656008002 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 859656008003 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 859656008004 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 859656008005 catalytic core [active] 859656008006 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 859656008007 substrate binding site [chemical binding]; other site 859656008008 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 859656008009 putative active site [active] 859656008010 dimerization interface [polypeptide binding]; other site 859656008011 putative tRNAtyr binding site [nucleotide binding]; other site 859656008012 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 859656008013 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 859656008014 active site 859656008015 HIGH motif; other site 859656008016 dimer interface [polypeptide binding]; other site 859656008017 KMSKS motif; other site 859656008018 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 859656008019 RNA binding surface [nucleotide binding]; other site 859656008020 Uncharacterized protein family (UPF0075); Region: UPF0075; cl04217 859656008021 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 859656008022 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 859656008023 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 859656008024 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 859656008025 23S rRNA interface [nucleotide binding]; other site 859656008026 L3 interface [polypeptide binding]; other site 859656008027 OsmC-like protein; Region: OsmC; cl00767 859656008028 Protein of unknown function (DUF3025); Region: DUF3025; pfam11227 859656008029 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 859656008030 active site 859656008031 substrate binding pocket [chemical binding]; other site 859656008032 dimer interface [polypeptide binding]; other site 859656008033 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 859656008034 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 859656008035 MOFRL family; Region: MOFRL; pfam05161 859656008036 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : enzyme 859656008037 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 859656008038 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 859656008039 putative active site [active] 859656008040 putative dimer interface [polypeptide binding]; other site 859656008041 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 859656008042 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 859656008043 Walker A/P-loop; other site 859656008044 ATP binding site [chemical binding]; other site 859656008045 Q-loop/lid; other site 859656008046 ABC transporter signature motif; other site 859656008047 Walker B; other site 859656008048 D-loop; other site 859656008049 H-loop/switch region; other site 859656008050 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 859656008051 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 859656008052 dimer interface [polypeptide binding]; other site 859656008053 conserved gate region; other site 859656008054 putative PBP binding loops; other site 859656008055 ABC-ATPase subunit interface; other site 859656008056 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 859656008057 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 859656008058 dimer interface [polypeptide binding]; other site 859656008059 conserved gate region; other site 859656008060 putative PBP binding loops; other site 859656008061 ABC-ATPase subunit interface; other site 859656008062 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 859656008063 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 859656008064 substrate binding pocket [chemical binding]; other site 859656008065 membrane-bound complex binding site; other site 859656008066 hinge residues; other site 859656008067 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 859656008068 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 859656008069 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 859656008070 NAD(P) binding site [chemical binding]; other site 859656008071 Helix-turn-helix domains; Region: HTH; cl00088 859656008072 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 859656008073 dimerization interface [polypeptide binding]; other site 859656008074 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 859656008075 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 859656008076 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 859656008077 Walker A/P-loop; other site 859656008078 ATP binding site [chemical binding]; other site 859656008079 Q-loop/lid; other site 859656008080 ABC transporter signature motif; other site 859656008081 Walker B; other site 859656008082 D-loop; other site 859656008083 H-loop/switch region; other site 859656008084 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 859656008085 enoyl-CoA hydratase; Provisional; Region: PRK06688 859656008086 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 859656008087 substrate binding site [chemical binding]; other site 859656008088 oxyanion hole (OAH) forming residues; other site 859656008089 trimer interface [polypeptide binding]; other site 859656008090 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 859656008091 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 859656008092 dimer interface [polypeptide binding]; other site 859656008093 active site 859656008094 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 859656008095 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656008096 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 859656008097 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 859656008098 substrate binding site [chemical binding]; other site 859656008099 oxyanion hole (OAH) forming residues; other site 859656008100 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 859656008101 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 859656008102 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 859656008103 active site 859656008104 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 859656008105 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 859656008106 Helix-turn-helix domains; Region: HTH; cl00088 859656008107 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 859656008108 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 859656008109 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 859656008110 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 859656008111 putative active site [active] 859656008112 catalytic site [active] 859656008113 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 859656008114 PLD-like domain; Region: PLDc_2; pfam13091 859656008115 putative active site [active] 859656008116 catalytic site [active] 859656008117 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 859656008118 putative catalytic site [active] 859656008119 putative metal binding site [ion binding]; other site 859656008120 putative phosphate binding site [ion binding]; other site 859656008121 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_7; cd04664 859656008122 nudix motif; other site 859656008123 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 859656008124 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 859656008125 dimer interface [polypeptide binding]; other site 859656008126 anticodon binding site; other site 859656008127 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 859656008128 homodimer interface [polypeptide binding]; other site 859656008129 motif 1; other site 859656008130 active site 859656008131 motif 2; other site 859656008132 GAD domain; Region: GAD; pfam02938 859656008133 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 859656008134 motif 3; other site 859656008135 Protein of unknown function (DUF502); Region: DUF502; cl01107 859656008136 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 859656008137 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 859656008138 Na(+)- and Cl(-)-dependent choline cotransporter CHT and related proteins; solute-binding domain; Region: SLC5sbd_CHT; cd11474 859656008139 Na binding site [ion binding]; other site 859656008140 putative glycosylation site [posttranslational modification]; other site 859656008141 putative glycosylation site [posttranslational modification]; other site 859656008142 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 859656008143 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 859656008144 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 859656008145 SCP-2 sterol transfer family; Region: SCP2; cl01225 859656008146 Tim44-like domain; Region: Tim44; cl09208 859656008147 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 859656008148 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 859656008149 S-adenosylmethionine binding site [chemical binding]; other site 859656008150 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 859656008151 Protein of unknown function (DUF971); Region: DUF971; cl01414 859656008152 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 859656008153 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 859656008154 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 859656008155 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 859656008156 nucleotide binding site/active site [active] 859656008157 HIT family signature motif; other site 859656008158 catalytic residue [active] 859656008159 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 859656008160 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 859656008161 FAD binding domain; Region: FAD_binding_4; pfam01565 859656008162 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 859656008163 Heterodisulfide reductase, subunit C [Energy production and conversion]; Region: HdrC; COG1150 859656008164 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 859656008165 Cysteine-rich domain; Region: CCG; pfam02754 859656008166 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 859656008167 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 859656008168 Nucleoside recognition; Region: Gate; cl00486 859656008169 Nucleoside recognition; Region: Gate; cl00486 859656008170 Ion channel; Region: Ion_trans_2; cl11596 859656008171 threonine dehydratase; Reviewed; Region: PRK09224 859656008172 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 859656008173 tetramer interface [polypeptide binding]; other site 859656008174 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859656008175 catalytic residue [active] 859656008176 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 859656008177 putative Ile/Val binding site [chemical binding]; other site 859656008178 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 859656008179 putative Ile/Val binding site [chemical binding]; other site 859656008180 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 859656008181 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 859656008182 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 859656008183 A sub-family of peptidase family C39. 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; Region: Peptidase_C39G; cd02423 859656008184 putative active site [active] 859656008185 AMP-binding domain protein; Validated; Region: PRK08315 859656008186 AMP-binding enzyme; Region: AMP-binding; cl15778 859656008187 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 859656008188 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 859656008189 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 859656008190 ATP-binding site [chemical binding]; other site 859656008191 Gluconate-6-phosphate binding site [chemical binding]; other site 859656008192 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 859656008193 Predicted transporter component [General function prediction only]; Region: COG2391 859656008194 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 859656008195 Ligand binding site; other site 859656008196 Putative Catalytic site; other site 859656008197 DXD motif; other site 859656008198 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 859656008199 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656008200 NAD(P) binding site [chemical binding]; other site 859656008201 active site 859656008202 Phosphopantetheine attachment site; Region: PP-binding; cl09936 859656008203 Predicted membrane protein [Function unknown]; Region: COG4648 859656008204 AMP-binding enzyme; Region: AMP-binding; cl15778 859656008205 FabA/Z, beta-hydroxyacyl-acyl carrier protein (ACP)-dehydratases: One of several distinct enzyme types of the dissociative, type II, fatty acid synthase system (found in bacteria and plants) required to complete successive cycles of fatty acid elongation; Region: FabA_FabZ; cd00493 859656008206 active site 2 [active] 859656008207 dimer interface [polypeptide binding]; other site 859656008208 active site 1 [active] 859656008209 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 859656008210 putative acyl-acceptor binding pocket; other site 859656008211 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 859656008212 Predicted exporter [General function prediction only]; Region: COG4258 859656008213 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 859656008214 NodB motif; other site 859656008215 active site 859656008216 catalytic site [active] 859656008217 metal binding site [ion binding]; metal-binding site 859656008218 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 859656008219 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 859656008220 dimer interface [polypeptide binding]; other site 859656008221 active site 859656008222 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 859656008223 Domain of unknown function, appears to be related to a diverse group of beta-hydroxydecanoyl ACP dehydratases (FabA) and beta-hydroxyacyl ACP dehydratases (FabZ). This group appears to lack the conserved active site histidine of FabA and FabZ; Region: FabA_like; cd01289 859656008224 putative active site 1 [active] 859656008225 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 859656008226 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 859656008227 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 859656008228 tetramer interface [polypeptide binding]; other site 859656008229 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859656008230 catalytic residue [active] 859656008231 Cupin domain; Region: Cupin_2; cl09118 859656008232 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 859656008233 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 859656008234 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 859656008235 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 859656008236 dimer interface [polypeptide binding]; other site 859656008237 ssDNA binding site [nucleotide binding]; other site 859656008238 tetramer (dimer of dimers) interface [polypeptide binding]; other site 859656008239 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 859656008240 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 859656008241 putative substrate translocation pore; other site 859656008242 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 859656008243 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 859656008244 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 859656008245 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 859656008246 Adenosine specific kinase; Region: Adenosine_kin; cl00796 859656008247 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 859656008248 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 859656008249 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 859656008250 PhoU domain; Region: PhoU; pfam01895 859656008251 PhoU domain; Region: PhoU; pfam01895 859656008252 LysE type translocator; Region: LysE; cl00565 859656008253 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 859656008254 active site 859656008255 intracellular protease, PfpI family; Region: PfpI; TIGR01382 859656008256 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 859656008257 conserved cys residue [active] 859656008258 Ribbon-helix-helix domain; Region: RHH_4; cl01775 859656008259 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 859656008260 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 859656008261 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 859656008262 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656008263 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 859656008264 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 859656008265 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 859656008266 putative active site [active] 859656008267 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 859656008268 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 859656008269 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 859656008270 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 859656008271 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 859656008272 OstA-like protein; Region: OstA; cl00844 859656008273 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 859656008274 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 859656008275 Walker A/P-loop; other site 859656008276 ATP binding site [chemical binding]; other site 859656008277 Q-loop/lid; other site 859656008278 ABC transporter signature motif; other site 859656008279 Walker B; other site 859656008280 D-loop; other site 859656008281 H-loop/switch region; other site 859656008282 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 859656008283 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 859656008284 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 859656008285 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 859656008286 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 859656008287 30S subunit binding site; other site 859656008288 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 859656008289 active site 859656008290 phosphorylation site [posttranslational modification] 859656008291 HPr kinase/phosphorylase; Provisional; Region: PRK05428 859656008292 DRTGG domain; Region: DRTGG; cl12147 859656008293 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 859656008294 Hpr binding site; other site 859656008295 active site 859656008296 homohexamer subunit interaction site [polypeptide binding]; other site 859656008297 psiF repeat; Region: PsiF_repeat; pfam07769 859656008298 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 859656008299 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 859656008300 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 859656008301 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 859656008302 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 859656008303 minor groove reading motif; other site 859656008304 helix-hairpin-helix signature motif; other site 859656008305 substrate binding pocket [chemical binding]; other site 859656008306 active site 859656008307 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 859656008308 DNA binding and oxoG recognition site [nucleotide binding] 859656008309 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 859656008310 G1 box; other site 859656008311 GTP/Mg2+ binding site [chemical binding]; other site 859656008312 Predicted GTPases (dynamin-related) [General function prediction only]; Region: COG0699 859656008313 G2 box; other site 859656008314 Switch I region; other site 859656008315 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 859656008316 G3 box; other site 859656008317 Switch II region; other site 859656008318 GTP/Mg2+ binding site [chemical binding]; other site 859656008319 G4 box; other site 859656008320 G5 box; other site 859656008321 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 859656008322 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 859656008323 DNA binding site [nucleotide binding] 859656008324 catalytic residue [active] 859656008325 H2TH interface [polypeptide binding]; other site 859656008326 putative catalytic residues [active] 859656008327 turnover-facilitating residue; other site 859656008328 intercalation triad [nucleotide binding]; other site 859656008329 8OG recognition residue [nucleotide binding]; other site 859656008330 putative reading head residues; other site 859656008331 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 859656008332 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 859656008333 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 859656008334 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 859656008335 TPR motif; other site 859656008336 binding surface 859656008337 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 859656008338 binding surface 859656008339 TPR motif; other site 859656008340 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 859656008341 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 859656008342 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 859656008343 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 859656008344 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 859656008345 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 859656008346 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 859656008347 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 859656008348 active site 859656008349 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 859656008350 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 859656008351 5S rRNA interface [nucleotide binding]; other site 859656008352 CTC domain interface [polypeptide binding]; other site 859656008353 L16 interface [polypeptide binding]; other site 859656008354 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 859656008355 putative active site [active] 859656008356 catalytic residue [active] 859656008357 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 859656008358 hypothetical protein; Provisional; Region: PRK13795 859656008359 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 859656008360 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 859656008361 active site 859656008362 (T/H)XGH motif; other site 859656008363 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 859656008364 S-adenosylmethionine binding site [chemical binding]; other site 859656008365 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 859656008366 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 859656008367 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 859656008368 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 859656008369 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 859656008370 signal recognition particle-docking protein FtsY; Region: ftsY; TIGR00064 859656008371 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 859656008372 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 859656008373 P loop; other site 859656008374 GTP binding site [chemical binding]; other site 859656008375 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 859656008376 maleylacetoacetate isomerase; Region: maiA; TIGR01262 859656008377 C-terminal domain interface [polypeptide binding]; other site 859656008378 GSH binding site (G-site) [chemical binding]; other site 859656008379 putative dimer interface [polypeptide binding]; other site 859656008380 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 859656008381 dimer interface [polypeptide binding]; other site 859656008382 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 859656008383 N-terminal domain interface [polypeptide binding]; other site 859656008384 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 859656008385 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 859656008386 ANTAR domain; Region: ANTAR; cl04297 859656008387 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 859656008388 NMT1-like family; Region: NMT1_2; cl15260 859656008389 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 859656008390 dimer interface [polypeptide binding]; other site 859656008391 conserved gate region; other site 859656008392 putative PBP binding loops; other site 859656008393 ABC-ATPase subunit interface; other site 859656008394 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 859656008395 nitrate transport ATP-binding subunits C and D; Region: ntrCD; TIGR01184 859656008396 Walker A/P-loop; other site 859656008397 ATP binding site [chemical binding]; other site 859656008398 Q-loop/lid; other site 859656008399 ABC transporter signature motif; other site 859656008400 Walker B; other site 859656008401 D-loop; other site 859656008402 H-loop/switch region; other site 859656008403 glycosyl transferase family protein; Provisional; Region: PRK08136 859656008404 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 859656008405 Pirin-related protein [General function prediction only]; Region: COG1741 859656008406 Cupin domain; Region: Cupin_2; cl09118 859656008407 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 859656008408 OsmC-like protein; Region: OsmC; cl00767 859656008409 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 859656008410 PAS domain; Region: PAS_9; pfam13426 859656008411 putative active site [active] 859656008412 heme pocket [chemical binding]; other site 859656008413 PAS domain; Region: PAS_9; pfam13426 859656008414 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 859656008415 putative active site [active] 859656008416 heme pocket [chemical binding]; other site 859656008417 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 859656008418 metal binding site [ion binding]; metal-binding site 859656008419 active site 859656008420 I-site; other site 859656008421 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 859656008422 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 859656008423 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 859656008424 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 859656008425 DNA binding residues [nucleotide binding] 859656008426 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 859656008427 Cu(I) binding site [ion binding]; other site 859656008428 UbiA prenyltransferase family; Region: UbiA; cl00337 859656008429 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 859656008430 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 859656008431 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 859656008432 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 859656008433 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 859656008434 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 859656008435 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 859656008436 Subunit III/VIIa interface [polypeptide binding]; other site 859656008437 Phospholipid binding site [chemical binding]; other site 859656008438 Subunit I/III interface [polypeptide binding]; other site 859656008439 Subunit III/VIb interface [polypeptide binding]; other site 859656008440 Subunit III/VIa interface; other site 859656008441 Subunit III/Vb interface [polypeptide binding]; other site 859656008442 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 859656008443 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; cl01240 859656008444 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 859656008445 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 859656008446 Subunit I/III interface [polypeptide binding]; other site 859656008447 D-pathway; other site 859656008448 Subunit I/VIIc interface [polypeptide binding]; other site 859656008449 Subunit I/IV interface [polypeptide binding]; other site 859656008450 Subunit I/II interface [polypeptide binding]; other site 859656008451 Low-spin heme (heme a) binding site [chemical binding]; other site 859656008452 Subunit I/VIIa interface [polypeptide binding]; other site 859656008453 Subunit I/VIa interface [polypeptide binding]; other site 859656008454 Dimer interface; other site 859656008455 Putative water exit pathway; other site 859656008456 Binuclear center (heme a3/CuB) [ion binding]; other site 859656008457 K-pathway; other site 859656008458 Subunit I/Vb interface [polypeptide binding]; other site 859656008459 Putative proton exit pathway; other site 859656008460 Subunit I/VIb interface; other site 859656008461 Subunit I/VIc interface [polypeptide binding]; other site 859656008462 Electron transfer pathway; other site 859656008463 Subunit I/VIIIb interface [polypeptide binding]; other site 859656008464 Subunit I/VIIb interface [polypeptide binding]; other site 859656008465 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 859656008466 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 859656008467 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 859656008468 Cytochrome c; Region: Cytochrom_C; cl11414 859656008469 Integral membrane protein (DUF2244); Region: DUF2244; cl02302 859656008470 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 859656008471 S-adenosylmethionine binding site [chemical binding]; other site 859656008472 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 859656008473 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 859656008474 active site 859656008475 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 859656008476 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 859656008477 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656008478 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 859656008479 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 859656008480 SecA binding site; other site 859656008481 Preprotein binding site; other site 859656008482 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 859656008483 GSH binding site [chemical binding]; other site 859656008484 catalytic residues [active] 859656008485 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 859656008486 active site residue [active] 859656008487 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 859656008488 catalytic core [active] 859656008489 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 859656008490 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 859656008491 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 859656008492 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 859656008493 protein binding site [polypeptide binding]; other site 859656008494 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 859656008495 Catalytic dyad [active] 859656008496 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 859656008497 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 859656008498 ATP binding site [chemical binding]; other site 859656008499 substrate interface [chemical binding]; other site 859656008500 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 859656008501 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 859656008502 heme binding site [chemical binding]; other site 859656008503 ferroxidase pore; other site 859656008504 ferroxidase diiron center [ion binding]; other site 859656008505 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 859656008506 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 859656008507 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 859656008508 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 859656008509 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 859656008510 Evidence 2b : Function of strongly homologous gene; Product type t : transporter 859656008511 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 859656008512 active pocket/dimerization site; other site 859656008513 active site 859656008514 phosphorylation site [posttranslational modification] 859656008515 glutathione synthetase; Provisional; Region: PRK05246 859656008516 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 859656008517 ATP-grasp domain; Region: ATP-grasp_4; cl03087 859656008518 Glutamate-cysteine ligase; Region: GshA; pfam08886 859656008519 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 859656008520 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 859656008521 Nitrogen regulatory protein P-II; Region: P-II; cl00412 859656008522 Nitrogen regulatory protein P-II; Region: P-II; smart00938 859656008523 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 859656008524 Membrane fusogenic activity; Region: BMFP; cl01115 859656008525 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 859656008526 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 859656008527 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 859656008528 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 859656008529 Common central domain of tyrosinase; Region: Tyrosinase; pfam00264 859656008530 Polyphenol oxidase middle domain; Region: PPO1_DWL; pfam12142 859656008531 Protein of unknown function (DUF_B2219); Region: PPO1_KFDV; pfam12143 859656008532 Macro domain, Appr-1'-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose...; Region: Macro_Appr_pase_like; cd02908 859656008533 putative ADP-ribose binding site [chemical binding]; other site 859656008534 putative active site [active] 859656008535 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 859656008536 catalytic residues [active] 859656008537 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 859656008538 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 859656008539 active site 859656008540 phosphorylation site [posttranslational modification] 859656008541 intermolecular recognition site; other site 859656008542 dimerization interface [polypeptide binding]; other site 859656008543 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 859656008544 Walker A motif; other site 859656008545 ATP binding site [chemical binding]; other site 859656008546 Walker B motif; other site 859656008547 arginine finger; other site 859656008548 Helix-turn-helix domains; Region: HTH; cl00088 859656008549 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 859656008550 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 859656008551 dimer interface [polypeptide binding]; other site 859656008552 phosphorylation site [posttranslational modification] 859656008553 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 859656008554 ATP binding site [chemical binding]; other site 859656008555 Mg2+ binding site [ion binding]; other site 859656008556 G-X-G motif; other site 859656008557 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 859656008558 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 859656008559 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 859656008560 dimer interface [polypeptide binding]; other site 859656008561 [2Fe-2S] cluster binding site [ion binding]; other site 859656008562 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 859656008563 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 859656008564 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 859656008565 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 859656008566 Protein of unknown function (DUF493); Region: DUF493; cl01102 859656008567 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 859656008568 Helix-turn-helix domains; Region: HTH; cl00088 859656008569 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 859656008570 dimerization interface [polypeptide binding]; other site 859656008571 substrate binding pocket [chemical binding]; other site 859656008572 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 859656008573 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 859656008574 lipoyl synthase; Provisional; Region: PRK05481 859656008575 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 859656008576 FeS/SAM binding site; other site 859656008577 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 859656008578 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 859656008579 ATP binding site [chemical binding]; other site 859656008580 Mg++ binding site [ion binding]; other site 859656008581 motif III; other site 859656008582 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 859656008583 nucleotide binding region [chemical binding]; other site 859656008584 ATP-binding site [chemical binding]; other site 859656008585 DbpA RNA binding domain; Region: DbpA; pfam03880 859656008586 YopJ Serine/Threonine acetyltransferase; Region: YopJ; cl07849 859656008587 Predicted secreted protein [Function unknown]; Region: COG5445 859656008588 VanZ like family; Region: VanZ; cl01971 859656008589 Protein of unknown function (DUF330); Region: DUF330; cl01135 859656008590 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 859656008591 mce related protein; Region: MCE; pfam02470 859656008592 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 859656008593 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 859656008594 Walker A/P-loop; other site 859656008595 ATP binding site [chemical binding]; other site 859656008596 Q-loop/lid; other site 859656008597 ABC transporter signature motif; other site 859656008598 Walker B; other site 859656008599 D-loop; other site 859656008600 H-loop/switch region; other site 859656008601 Permease; Region: Permease; cl00510 859656008602 biotin--protein ligase; Provisional; Region: PRK06955 859656008603 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 859656008604 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 859656008605 Type III pantothenate kinase; Region: Pan_kinase; cl09130 859656008606 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 859656008607 active site 859656008608 nucleotide binding site [chemical binding]; other site 859656008609 HIGH motif; other site 859656008610 KMSKS motif; other site 859656008611 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 859656008612 dinuclear metal binding motif [ion binding]; other site 859656008613 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 859656008614 catalytic residues [active] 859656008615 dimer interface [polypeptide binding]; other site 859656008616 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 859656008617 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 859656008618 active site 859656008619 nucleophile elbow; other site 859656008620 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 859656008621 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 859656008622 substrate binding site [chemical binding]; other site 859656008623 oxyanion hole (OAH) forming residues; other site 859656008624 trimer interface [polypeptide binding]; other site 859656008625 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 859656008626 Transcriptional regulator [Transcription]; Region: IclR; COG1414 859656008627 Helix-turn-helix domains; Region: HTH; cl00088 859656008628 Bacterial transcriptional regulator; Region: IclR; pfam01614 859656008629 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 859656008630 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 859656008631 Transcriptional regulator [Transcription]; Region: IclR; COG1414 859656008632 Helix-turn-helix domains; Region: HTH; cl00088 859656008633 Bacterial transcriptional regulator; Region: IclR; pfam01614 859656008634 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 859656008635 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 859656008636 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 859656008637 Protein of unknown function (DUF3567); Region: DUF3567; pfam12091 859656008638 Member of the Rhodanese Homology Domain superfamily, subgroup 1. This CD includes the putative rhodanese-related sulfurtransferases of several uncharacterized proteins; Region: RHOD_1; cd01522 859656008639 active site residue [active] 859656008640 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 859656008641 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 859656008642 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 859656008643 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 859656008644 substrate binding pocket [chemical binding]; other site 859656008645 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 859656008646 B12 binding site [chemical binding]; other site 859656008647 cobalt ligand [ion binding]; other site 859656008648 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 859656008649 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 859656008650 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 859656008651 active site 859656008652 phosphorylation site [posttranslational modification] 859656008653 intermolecular recognition site; other site 859656008654 dimerization interface [polypeptide binding]; other site 859656008655 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 859656008656 DNA binding residues [nucleotide binding] 859656008657 dimerization interface [polypeptide binding]; other site 859656008658 Response regulator receiver domain; Region: Response_reg; pfam00072 859656008659 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 859656008660 active site 859656008661 phosphorylation site [posttranslational modification] 859656008662 intermolecular recognition site; other site 859656008663 dimerization interface [polypeptide binding]; other site 859656008664 Entericidin EcnA/B family; Region: Entericidin; cl02322 859656008665 CHASE3 domain; Region: CHASE3; cl05000 859656008666 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 859656008667 Histidine kinase; Region: HisKA_3; pfam07730 859656008668 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 859656008669 ATP binding site [chemical binding]; other site 859656008670 Mg2+ binding site [ion binding]; other site 859656008671 G-X-G motif; other site 859656008672 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 859656008673 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 859656008674 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 859656008675 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 859656008676 active site 859656008677 HIGH motif; other site 859656008678 KMSK motif region; other site 859656008679 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 859656008680 tRNA binding surface [nucleotide binding]; other site 859656008681 anticodon binding site; other site 859656008682 Cell division protein [Cell division and chromosome partitioning]; Region: FtsN; COG3087 859656008683 Sporulation related domain; Region: SPOR; cl10051 859656008684 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 859656008685 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 859656008686 catalytic residues [active] 859656008687 hinge region; other site 859656008688 alpha helical domain; other site 859656008689 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 859656008690 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656008691 NAD(P) binding site [chemical binding]; other site 859656008692 active site 859656008693 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 859656008694 intersubunit interface [polypeptide binding]; other site 859656008695 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 859656008696 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 859656008697 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 859656008698 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 859656008699 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 859656008700 DNA binding residues [nucleotide binding] 859656008701 putative dimer interface [polypeptide binding]; other site 859656008702 isovaleryl-CoA dehydrogenase; Region: PLN02519 859656008703 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 859656008704 substrate binding site [chemical binding]; other site 859656008705 FAD binding site [chemical binding]; other site 859656008706 catalytic base [active] 859656008707 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 859656008708 Isocitrate dehydrogenase kinase/phosphatase (AceK); Region: AceK; cl01891 859656008709 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_cladeA; cd00883 859656008710 active site clefts [active] 859656008711 zinc binding site [ion binding]; other site 859656008712 dimer interface [polypeptide binding]; other site 859656008713 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 859656008714 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 859656008715 dimer interface [polypeptide binding]; other site 859656008716 active site 859656008717 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 859656008718 NADP binding site [chemical binding]; other site 859656008719 homodimer interface [polypeptide binding]; other site 859656008720 active site 859656008721 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 859656008722 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 859656008723 active site 859656008724 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 859656008725 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 859656008726 putative catalytic residue [active] 859656008727 Polysulfide-sulfurtransferase - Rhodanese Homology Domain. This domain is believed to serve as a polysulfide binding and transferase domain in anaerobic gram-negative bacteria, functioning in oxidative phosphorylation with polysulfide-sulfur as a...; Region: Polysulfide_ST; cd01447 859656008728 active site 859656008729 catalytic residue [active] 859656008730 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 859656008731 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 859656008732 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 859656008733 motif II; other site 859656008734 hypothetical protein; Provisional; Region: PRK01842 859656008735 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 859656008736 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 859656008737 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 859656008738 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 859656008739 enoyl-CoA hydratase; Provisional; Region: PRK05995 859656008740 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 859656008741 substrate binding site [chemical binding]; other site 859656008742 oxyanion hole (OAH) forming residues; other site 859656008743 trimer interface [polypeptide binding]; other site 859656008744 biotin synthase; Region: bioB; TIGR00433 859656008745 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 859656008746 FeS/SAM binding site; other site 859656008747 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 859656008748 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 859656008749 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 859656008750 ATP-grasp domain; Region: ATP-grasp_4; cl03087 859656008751 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 859656008752 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 859656008753 carboxyltransferase (CT) interaction site; other site 859656008754 biotinylation site [posttranslational modification]; other site 859656008755 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 859656008756 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 859656008757 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 859656008758 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656008759 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 859656008760 active site 859656008761 catalytic residues [active] 859656008762 metal binding site [ion binding]; metal-binding site 859656008763 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 859656008764 putative deacylase active site [active] 859656008765 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 859656008766 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 859656008767 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 859656008768 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 859656008769 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 859656008770 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 859656008771 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 859656008772 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 859656008773 FMN binding site [chemical binding]; other site 859656008774 substrate binding site [chemical binding]; other site 859656008775 putative catalytic residue [active] 859656008776 Uncharacterized conserved protein [Function unknown]; Region: COG5361 859656008777 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 859656008778 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 859656008779 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 859656008780 sequence-specific DNA binding site [nucleotide binding]; other site 859656008781 bifunctional HTH-domain containing protein/aminotransferase; Provisional; Region: PRK13355 859656008782 salt bridge; other site 859656008783 Cupin domain; Region: Cupin_2; cl09118 859656008784 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 859656008785 Coenzyme A binding pocket [chemical binding]; other site 859656008786 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 859656008787 putative transposase OrfB; Reviewed; Region: PHA02517 859656008788 HTH-like domain; Region: HTH_21; pfam13276 859656008789 Integrase core domain; Region: rve; cl01316 859656008790 Integrase core domain; Region: rve_3; cl15866 859656008791 Helix-turn-helix domains; Region: HTH; cl00088 859656008792 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 859656008793 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 859656008794 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 859656008795 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 859656008796 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 859656008797 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 859656008798 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 859656008799 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 859656008800 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 859656008801 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 859656008802 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 859656008803 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 859656008804 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 859656008805 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 859656008806 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 859656008807 NH_2: A subgroup of nucleoside hydrolases. This group contains eukaryotic and bacterial proteins similar to nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes...; Region: nuc_hydro_2; cd02652 859656008808 active site 859656008809 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 859656008810 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656008811 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 859656008812 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 859656008813 B12 binding site [chemical binding]; other site 859656008814 cobalt ligand [ion binding]; other site 859656008815 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 859656008816 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 859656008817 Walker A; other site 859656008818 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, unknown subfamily 1; composed of uncharacterized bacterial proteins containing a C-terminal MCM domain. MCM catalyzes the isomerization of methylmalonyl-CoA to succinyl-CoA. The...; Region: MM_CoA_mutase_1; cd03678 859656008819 Methylmalonyl-CoA mutase, N-terminal domain/subunit [Lipid metabolism]; Region: Sbm; COG1884 859656008820 putative active site [active] 859656008821 putative substrate binding site [chemical binding]; other site 859656008822 putative coenzyme B12 binding site [chemical binding]; other site 859656008823 Domain of unknown function (DUF427); Region: DUF427; cl00998 859656008824 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 859656008825 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 859656008826 LysE type translocator; Region: LysE; cl00565 859656008827 Bacterial low temperature requirement A protein (LtrA); Region: LtrA; cl01754 859656008828 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 859656008829 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 859656008830 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859656008831 homodimer interface [polypeptide binding]; other site 859656008832 catalytic residue [active] 859656008833 RNA 3'-terminal-phosphate cyclase; Provisional; Region: PRK04204 859656008834 RNA 3' phosphate cyclase domain (class II). These proteins function as RNA cyclase to catalyze the ATP-dependent conversion of 3'-phosphate to a 2'.3'-cyclic phosphodiester at the end of RNA molecule. A conserved catalytic histidine residue is found in...; Region: RNA_Cyclase_Class_II; cd00874 859656008835 putative active site [active] 859656008836 adenylation catalytic residue [active] 859656008837 Predicted nucleotidyltransferase; Region: Nuc-transf; cl01417 859656008838 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cl15780 859656008839 hypothetical protein; Reviewed; Region: PRK09588 859656008840 Probable zinc-binding domain; Region: zf-trcl; pfam13451 859656008841 Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: RtcR; COG4650 859656008842 Regulator of RNA terminal phosphate cyclase; Region: RtcR; pfam06956 859656008843 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 859656008844 Walker A motif; other site 859656008845 ATP binding site [chemical binding]; other site 859656008846 Walker B motif; other site 859656008847 arginine finger; other site 859656008848 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 859656008849 active site 859656008850 nucleophile elbow; other site 859656008851 Cupin domain; Region: Cupin_2; cl09118 859656008852 Acylphosphatase; Region: Acylphosphatase; cl00551 859656008853 Transposase, Mutator family; Region: Transposase_mut; pfam00872 859656008854 MULE transposase domain; Region: MULE; pfam10551 859656008855 Double zinc ribbon; Region: DZR; pfam12773 859656008856 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 859656008857 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 859656008858 glutaminase active site [active] 859656008859 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 859656008860 dimer interface [polypeptide binding]; other site 859656008861 active site 859656008862 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 859656008863 dimer interface [polypeptide binding]; other site 859656008864 active site 859656008865 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 859656008866 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 859656008867 Substrate binding site; other site 859656008868 Mg++ binding site; other site 859656008869 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 859656008870 active site 859656008871 substrate binding site [chemical binding]; other site 859656008872 CoA binding site [chemical binding]; other site 859656008873 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 859656008874 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 859656008875 Ligand Binding Site [chemical binding]; other site 859656008876 hypothetical protein; Validated; Region: PRK08238 859656008877 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 859656008878 UbiA prenyltransferase family; Region: UbiA; cl00337 859656008879 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 859656008880 FAD binding domain; Region: FAD_binding_4; pfam01565 859656008881 D-arabinono-1,4-lactone oxidase; Region: ALO; cl04370 859656008882 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 859656008883 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656008884 NAD(P) binding site [chemical binding]; other site 859656008885 active site 859656008886 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656008887 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 859656008888 NAD(P) binding site [chemical binding]; other site 859656008889 active site 859656008890 hypothetical protein; Provisional; Region: PRK07233 859656008891 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656008892 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656008893 GtrA-like protein; Region: GtrA; cl00971 859656008894 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 859656008895 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 859656008896 ABC-2 type transporter; Region: ABC2_membrane; cl11417 859656008897 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 859656008898 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 859656008899 Walker A/P-loop; other site 859656008900 ATP binding site [chemical binding]; other site 859656008901 Q-loop/lid; other site 859656008902 ABC transporter signature motif; other site 859656008903 Walker B; other site 859656008904 D-loop; other site 859656008905 H-loop/switch region; other site 859656008906 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 859656008907 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 859656008908 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 859656008909 Helix-turn-helix domains; Region: HTH; cl00088 859656008910 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 859656008911 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 859656008912 tetrameric interface [polypeptide binding]; other site 859656008913 NAD binding site [chemical binding]; other site 859656008914 catalytic residues [active] 859656008915 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 859656008916 RHS Repeat; Region: RHS_repeat; cl11982 859656008917 RHS Repeat; Region: RHS_repeat; cl11982 859656008918 RHS Repeat; Region: RHS_repeat; cl11982 859656008919 Evidence 4 : Homologs of previously reported genes of unknown function 859656008920 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859656008921 Helix-turn-helix domains; Region: HTH; cl00088 859656008922 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 859656008923 dimerization interface [polypeptide binding]; other site 859656008924 ornithine--oxo-acid transaminase; Reviewed; Region: rocD; PRK00854 859656008925 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 859656008926 inhibitor-cofactor binding pocket; inhibition site 859656008927 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859656008928 catalytic residue [active] 859656008929 Arginase family; Region: Arginase; cl00306 859656008930 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 859656008931 active site 859656008932 pteridine reductase; Provisional; Region: PRK09135 859656008933 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656008934 NAD(P) binding site [chemical binding]; other site 859656008935 active site 859656008936 Uncharacterized conserved protein [Function unknown]; Region: COG1565 859656008937 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 859656008938 muropeptide transporter; Validated; Region: ampG; PRK11010 859656008939 muropeptide transporter; Reviewed; Region: ampG; PRK11902 859656008940 Peptidase family M48; Region: Peptidase_M48; cl12018 859656008941 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 859656008942 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 859656008943 putative FMN binding site [chemical binding]; other site 859656008944 Transcriptional regulators [Transcription]; Region: MarR; COG1846 859656008945 Helix-turn-helix domains; Region: HTH; cl00088 859656008946 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 859656008947 putative active site [active] 859656008948 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; cd02106 859656008949 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 859656008950 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656008951 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 859656008952 Predicted membrane protein [Function unknown]; Region: COG4682 859656008953 yiaA/B two helix domain; Region: YiaAB; cl01759 859656008954 yiaA/B two helix domain; Region: YiaAB; cl01759 859656008955 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 859656008956 putative active site [active] 859656008957 putative catalytic site [active] 859656008958 putative DNA binding site [nucleotide binding]; other site 859656008959 putative phosphate binding site [ion binding]; other site 859656008960 metal binding site A [ion binding]; metal-binding site 859656008961 putative AP binding site [nucleotide binding]; other site 859656008962 putative metal binding site B [ion binding]; other site 859656008963 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 859656008964 active site 859656008965 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 859656008966 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 859656008967 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 859656008968 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 859656008969 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 859656008970 putative acyl-acceptor binding pocket; other site 859656008971 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 859656008972 putative acyl-acceptor binding pocket; other site 859656008973 S-adenosylmethionine synthetase; Validated; Region: PRK05250 859656008974 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 859656008975 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 859656008976 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 859656008977 GYD domain; Region: GYD; cl01743 859656008978 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 859656008979 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 859656008980 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 859656008981 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 859656008982 active site 859656008983 AIDA autotransporter-like protein ShdA; Provisional; Region: PRK15319 859656008984 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 859656008985 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 859656008986 HPP family; Region: HPP; pfam04982 859656008987 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 859656008988 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 859656008989 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 859656008990 C-terminal domain interface [polypeptide binding]; other site 859656008991 GSH binding site (G-site) [chemical binding]; other site 859656008992 dimer interface [polypeptide binding]; other site 859656008993 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 859656008994 N-terminal domain interface [polypeptide binding]; other site 859656008995 dimer interface [polypeptide binding]; other site 859656008996 putative substrate binding pocket (H-site) [chemical binding]; other site 859656008997 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 859656008998 Predicted transcriptional regulator [Transcription]; Region: COG2944 859656008999 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 859656009000 choline dehydrogenase; Validated; Region: PRK02106 859656009001 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656009002 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 859656009003 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 859656009004 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 859656009005 substrate binding pocket [chemical binding]; other site 859656009006 membrane-bound complex binding site; other site 859656009007 hinge residues; other site 859656009008 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 859656009009 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 859656009010 active site 859656009011 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 859656009012 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 859656009013 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 859656009014 Phage Tail Collar Domain; Region: Collar; pfam07484 859656009015 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 859656009016 Phage Tail Collar Domain; Region: Collar; pfam07484 859656009017 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 859656009018 Phage Tail Collar Domain; Region: Collar; pfam07484 859656009019 Cadherin repeat-like domain; Region: CA_like; cl15786 859656009020 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; cl01155 859656009021 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 859656009022 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 859656009023 FMN binding site [chemical binding]; other site 859656009024 substrate binding site [chemical binding]; other site 859656009025 putative catalytic residue [active] 859656009026 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 859656009027 ThiC-associated domain; Region: ThiC-associated; pfam13667 859656009028 ThiC family; Region: ThiC; cl08031 859656009029 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656009030 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 859656009031 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 859656009032 thiS-thiF/thiG interaction site; other site 859656009033 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 859656009034 ThiS interaction site; other site 859656009035 putative active site [active] 859656009036 tetramer interface [polypeptide binding]; other site 859656009037 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 859656009038 thiamine phosphate binding site [chemical binding]; other site 859656009039 active site 859656009040 pyrophosphate binding site [ion binding]; other site 859656009041 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 859656009042 putative dimer interface [polypeptide binding]; other site 859656009043 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 859656009044 dimer interface [polypeptide binding]; other site 859656009045 substrate binding site [chemical binding]; other site 859656009046 ATP binding site [chemical binding]; other site 859656009047 Alkaline phosphatase homologues; Region: alkPPc; smart00098 859656009048 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 859656009049 active site 859656009050 dimer interface [polypeptide binding]; other site 859656009051 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 859656009052 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 859656009053 dimer interface [polypeptide binding]; other site 859656009054 active site 859656009055 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 859656009056 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 859656009057 oligomerization interface [polypeptide binding]; other site 859656009058 active site 859656009059 NAD+ binding site [chemical binding]; other site 859656009060 Membrane protein of unknown function; Region: DUF360; cl00850 859656009061 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 859656009062 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 859656009063 FAD binding site [chemical binding]; other site 859656009064 TfoX N-terminal domain; Region: TfoX_N; cl01167 859656009065 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 859656009066 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 859656009067 lytic murein transglycosylase; Provisional; Region: PRK11619 859656009068 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 859656009069 N-acetyl-D-glucosamine binding site [chemical binding]; other site 859656009070 catalytic residue [active] 859656009071 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 859656009072 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 859656009073 putative NAD(P) binding site [chemical binding]; other site 859656009074 active site 859656009075 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 859656009076 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 859656009077 putative C-terminal domain interface [polypeptide binding]; other site 859656009078 putative GSH binding site (G-site) [chemical binding]; other site 859656009079 putative dimer interface [polypeptide binding]; other site 859656009080 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 859656009081 putative N-terminal domain interface [polypeptide binding]; other site 859656009082 putative dimer interface [polypeptide binding]; other site 859656009083 putative substrate binding pocket (H-site) [chemical binding]; other site 859656009084 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 859656009085 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 859656009086 active site 859656009087 NTP binding site [chemical binding]; other site 859656009088 metal binding triad [ion binding]; metal-binding site 859656009089 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 859656009090 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 859656009091 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 859656009092 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 859656009093 substrate binding pocket [chemical binding]; other site 859656009094 membrane-bound complex binding site; other site 859656009095 hinge residues; other site 859656009096 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 859656009097 hypothetical protein; Provisional; Region: PRK07483 859656009098 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 859656009099 inhibitor-cofactor binding pocket; inhibition site 859656009100 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859656009101 catalytic residue [active] 859656009102 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 859656009103 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 859656009104 putative active site [active] 859656009105 Response regulator receiver domain; Region: Response_reg; pfam00072 859656009106 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 859656009107 active site 859656009108 phosphorylation site [posttranslational modification] 859656009109 intermolecular recognition site; other site 859656009110 dimerization interface [polypeptide binding]; other site 859656009111 Helix-turn-helix domains; Region: HTH; cl00088 859656009112 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 859656009113 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 859656009114 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 859656009115 dimer interface [polypeptide binding]; other site 859656009116 phosphorylation site [posttranslational modification] 859656009117 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 859656009118 ATP binding site [chemical binding]; other site 859656009119 Mg2+ binding site [ion binding]; other site 859656009120 G-X-G motif; other site 859656009121 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 859656009122 16S rRNA methyltransferase B; Provisional; Region: PRK10901 859656009123 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 859656009124 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 859656009125 S-adenosylmethionine binding site [chemical binding]; other site 859656009126 Peptidase family M48; Region: Peptidase_M48; cl12018 859656009127 LysE type translocator; Region: LysE; cl00565 859656009128 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 859656009129 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 859656009130 putative active site [active] 859656009131 substrate binding site [chemical binding]; other site 859656009132 putative cosubstrate binding site; other site 859656009133 catalytic site [active] 859656009134 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 859656009135 substrate binding site [chemical binding]; other site 859656009136 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 859656009137 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 859656009138 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 859656009139 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 859656009140 active site 859656009141 catalytic residues [active] 859656009142 metal binding site [ion binding]; metal-binding site 859656009143 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 859656009144 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 859656009145 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 859656009146 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 859656009147 catalytic residues [active] 859656009148 DNA topoisomerase III; Validated; Region: PRK08173 859656009149 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 859656009150 active site 859656009151 putative interdomain interaction site [polypeptide binding]; other site 859656009152 putative metal-binding site [ion binding]; other site 859656009153 putative nucleotide binding site [chemical binding]; other site 859656009154 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 859656009155 domain I; other site 859656009156 DNA binding groove [nucleotide binding] 859656009157 phosphate binding site [ion binding]; other site 859656009158 domain II; other site 859656009159 domain III; other site 859656009160 nucleotide binding site [chemical binding]; other site 859656009161 catalytic site [active] 859656009162 domain IV; other site 859656009163 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 859656009164 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 859656009165 transcriptional regulator; Provisional; Region: PRK10632 859656009166 Helix-turn-helix domains; Region: HTH; cl00088 859656009167 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 859656009168 putative effector binding pocket; other site 859656009169 dimerization interface [polypeptide binding]; other site 859656009170 acyl-CoA synthetase; Validated; Region: PRK06178 859656009171 AMP-binding enzyme; Region: AMP-binding; cl15778 859656009172 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 859656009173 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 859656009174 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 859656009175 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 859656009176 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 859656009177 rod shape-determining protein MreD; Region: MreD; cl01087 859656009178 rod shape-determining protein MreC; Region: MreC; pfam04085 859656009179 rod shape-determining protein MreB; Provisional; Region: PRK13927 859656009180 Cell division protein FtsA; Region: FtsA; cl11496 859656009181 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 859656009182 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 859656009183 Amidase; Region: Amidase; cl11426 859656009184 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 859656009185 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 859656009186 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 859656009187 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 859656009188 GatB domain; Region: GatB_Yqey; cl11497 859656009189 GAF domain; Region: GAF; cl15785 859656009190 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 859656009191 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 859656009192 active site 859656009193 Int/Topo IB signature motif; other site 859656009194 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 859656009195 PUA domain; Region: PUA; cl00607 859656009196 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 859656009197 putative RNA binding site [nucleotide binding]; other site 859656009198 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 859656009199 S-adenosylmethionine binding site [chemical binding]; other site 859656009200 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 859656009201 FAD binding domain; Region: FAD_binding_4; pfam01565 859656009202 Berberine and berberine like; Region: BBE; pfam08031 859656009203 3-carboxymuconate cyclase [Carbohydrate transport and metabolism]; Region: COG2706 859656009204 Helix-turn-helix domains; Region: HTH; cl00088 859656009205 metal binding site 2 [ion binding]; metal-binding site 859656009206 putative DNA binding helix; other site 859656009207 metal binding site 1 [ion binding]; metal-binding site 859656009208 dimer interface [polypeptide binding]; other site 859656009209 structural Zn2+ binding site [ion binding]; other site 859656009210 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 859656009211 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 859656009212 P-loop, Walker A motif; other site 859656009213 Base recognition motif; other site 859656009214 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 859656009215 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 859656009216 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 859656009217 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 859656009218 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 859656009219 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_2; cd08498 859656009220 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 859656009221 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 859656009222 active site 859656009223 HslU subunit interaction site [polypeptide binding]; other site 859656009224 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 859656009225 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 859656009226 Walker A motif; other site 859656009227 ATP binding site [chemical binding]; other site 859656009228 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 859656009229 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 859656009230 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 859656009231 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 859656009232 active site 859656009233 phosphorylation site [posttranslational modification] 859656009234 intermolecular recognition site; other site 859656009235 dimerization interface [polypeptide binding]; other site 859656009236 Helix-turn-helix domains; Region: HTH; cl00088 859656009237 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 859656009238 dimer interface [polypeptide binding]; other site 859656009239 phosphorylation site [posttranslational modification] 859656009240 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 859656009241 ATP binding site [chemical binding]; other site 859656009242 Mg2+ binding site [ion binding]; other site 859656009243 G-X-G motif; other site 859656009244 Protein of unknown function (DUF461); Region: DUF461; cl01071 859656009245 Evidence 4 : Homologs of previously reported genes of unknown function 859656009246 Putative zinc-finger; Region: zf-HC2; cl15806 859656009247 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 859656009248 RNA polymerase sigma factor; Provisional; Region: PRK12520 859656009249 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 859656009250 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 859656009251 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 859656009252 feedback inhibition sensing region; other site 859656009253 homohexameric interface [polypeptide binding]; other site 859656009254 nucleotide binding site [chemical binding]; other site 859656009255 N-acetyl-L-glutamate binding site [chemical binding]; other site 859656009256 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 859656009257 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 859656009258 division inhibitor protein; Provisional; Region: slmA; PRK09480 859656009259 Helix-turn-helix domains; Region: HTH; cl00088 859656009260 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 859656009261 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 859656009262 DNA-binding site [nucleotide binding]; DNA binding site 859656009263 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 859656009264 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859656009265 homodimer interface [polypeptide binding]; other site 859656009266 catalytic residue [active] 859656009267 4-aminobutyrate aminotransferase; Provisional; Region: PRK06777 859656009268 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 859656009269 inhibitor-cofactor binding pocket; inhibition site 859656009270 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859656009271 catalytic residue [active] 859656009272 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 859656009273 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 859656009274 tetramerization interface [polypeptide binding]; other site 859656009275 NAD(P) binding site [chemical binding]; other site 859656009276 catalytic residues [active] 859656009277 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 859656009278 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 859656009279 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 859656009280 S-adenosylmethionine binding site [chemical binding]; other site 859656009281 Phasin protein; Region: Phasin_2; cl11491 859656009282 Sel1 repeat; Region: Sel1; cl02723 859656009283 Sel1 repeat; Region: Sel1; cl02723 859656009284 Sel1 repeat; Region: Sel1; cl02723 859656009285 Sel1 repeat; Region: Sel1; cl02723 859656009286 Protein of unknown function (DUF466); Region: DUF466; cl01082 859656009287 carbon starvation protein A; Provisional; Region: PRK15015 859656009288 Carbon starvation protein CstA; Region: CstA; pfam02554 859656009289 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 859656009290 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 859656009291 Cache domain; Region: Cache_2; cl07034 859656009292 Histidine kinase; Region: HisKA_3; pfam07730 859656009293 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 859656009294 ATP binding site [chemical binding]; other site 859656009295 Mg2+ binding site [ion binding]; other site 859656009296 G-X-G motif; other site 859656009297 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 859656009298 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 859656009299 active site 859656009300 phosphorylation site [posttranslational modification] 859656009301 intermolecular recognition site; other site 859656009302 dimerization interface [polypeptide binding]; other site 859656009303 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 859656009304 DNA binding residues [nucleotide binding] 859656009305 dimerization interface [polypeptide binding]; other site 859656009306 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 859656009307 Protein of unknown function (DUF3617); Region: DUF3617; pfam12276 859656009308 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 859656009309 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 859656009310 active site 859656009311 phosphorylation site [posttranslational modification] 859656009312 intermolecular recognition site; other site 859656009313 dimerization interface [polypeptide binding]; other site 859656009314 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 859656009315 DNA binding site [nucleotide binding] 859656009316 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_GTP; cd00819 859656009317 Phosphoenolpyruvate carboxykinase; Region: PEPCK; pfam00821 859656009318 active site 859656009319 substrate-binding site [chemical binding]; other site 859656009320 metal-binding site [ion binding] 859656009321 GTP binding site [chemical binding]; other site 859656009322 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 859656009323 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656009324 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 859656009325 putative active site [active] 859656009326 metal binding site [ion binding]; metal-binding site 859656009327 glutathione reductase; Validated; Region: PRK06116 859656009328 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 859656009329 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 859656009330 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 859656009331 active site 859656009332 nucleophile elbow; other site 859656009333 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 859656009334 Helix-turn-helix domains; Region: HTH; cl00088 859656009335 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 859656009336 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 859656009337 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 859656009338 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 859656009339 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 859656009340 Protein export membrane protein; Region: SecD_SecF; cl14618 859656009341 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 859656009342 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 859656009343 Predicted phosphohydrolases [General function prediction only]; Region: COG1408 859656009344 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 859656009345 putative active site [active] 859656009346 putative metal binding site [ion binding]; other site 859656009347 Low molecular weight phosphatase family; Region: LMWPc; cl00105 859656009348 active site 859656009349 Phospholipid methyltransferase; Region: PEMT; cl00763 859656009350 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 859656009351 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 859656009352 trmE is a tRNA modification GTPase; Region: trmE; cd04164 859656009353 G1 box; other site 859656009354 GTP/Mg2+ binding site [chemical binding]; other site 859656009355 Switch I region; other site 859656009356 G2 box; other site 859656009357 Switch II region; other site 859656009358 G3 box; other site 859656009359 G4 box; other site 859656009360 G5 box; other site 859656009361 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 859656009362 membrane protein insertase; Provisional; Region: PRK01318 859656009363 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 859656009364 Haemolytic domain; Region: Haemolytic; cl00506 859656009365 Ribonuclease P; Region: Ribonuclease_P; cl00457 859656009366 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 859656009367 Plasmid encoded RepA protein; Region: RepA_C; pfam04796 859656009368 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 859656009369 DNA-binding site [nucleotide binding]; DNA binding site 859656009370 RNA-binding motif; other site 859656009371 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 859656009372 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 859656009373 P-loop; other site 859656009374 Magnesium ion binding site [ion binding]; other site 859656009375 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 859656009376 ParB-like nuclease domain; Region: ParBc; cl02129 859656009377 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 859656009378 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 859656009379 active site 859656009380 tetramer interface; other site 859656009381 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 859656009382 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 859656009383 putative substrate translocation pore; other site 859656009384 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 859656009385 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 859656009386 dimer interface [polypeptide binding]; other site 859656009387 phosphorylation site [posttranslational modification] 859656009388 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 859656009389 ATP binding site [chemical binding]; other site 859656009390 Mg2+ binding site [ion binding]; other site 859656009391 G-X-G motif; other site 859656009392 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 859656009393 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 859656009394 active site 859656009395 phosphorylation site [posttranslational modification] 859656009396 intermolecular recognition site; other site 859656009397 dimerization interface [polypeptide binding]; other site 859656009398 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 859656009399 Walker A motif; other site 859656009400 ATP binding site [chemical binding]; other site 859656009401 Walker B motif; other site 859656009402 Helix-turn-helix domains; Region: HTH; cl00088 859656009403 Putative membrane peptidase family (DUF2324); Region: DUF2324; cl01810 859656009404 Cache domain; Region: Cache_1; pfam02743 859656009405 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 859656009406 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 859656009407 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 859656009408 putative active site [active] 859656009409 heme pocket [chemical binding]; other site 859656009410 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 859656009411 PAS domain; Region: PAS_9; pfam13426 859656009412 PAS fold; Region: PAS_4; pfam08448 859656009413 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 859656009414 putative active site [active] 859656009415 heme pocket [chemical binding]; other site 859656009416 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 859656009417 metal binding site [ion binding]; metal-binding site 859656009418 active site 859656009419 I-site; other site 859656009420 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 859656009421 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 859656009422 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 859656009423 TM-ABC transporter signature motif; other site 859656009424 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 859656009425 TM-ABC transporter signature motif; other site 859656009426 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 859656009427 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 859656009428 Walker A/P-loop; other site 859656009429 ATP binding site [chemical binding]; other site 859656009430 Q-loop/lid; other site 859656009431 ABC transporter signature motif; other site 859656009432 Walker B; other site 859656009433 D-loop; other site 859656009434 H-loop/switch region; other site 859656009435 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 859656009436 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 859656009437 Walker A/P-loop; other site 859656009438 ATP binding site [chemical binding]; other site 859656009439 Q-loop/lid; other site 859656009440 ABC transporter signature motif; other site 859656009441 Walker B; other site 859656009442 D-loop; other site 859656009443 H-loop/switch region; other site 859656009444 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859656009445 Helix-turn-helix domains; Region: HTH; cl00088 859656009446 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 859656009447 dimerization interface [polypeptide binding]; other site 859656009448 YCII-related domain; Region: YCII; cl00999 859656009449 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 859656009450 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 859656009451 Cl- selectivity filter; other site 859656009452 Cl- binding residues [ion binding]; other site 859656009453 pore gating glutamate residue; other site 859656009454 dimer interface [polypeptide binding]; other site 859656009455 YopJ Serine/Threonine acetyltransferase; Region: YopJ; cl07849 859656009456 Spherulation-specific family 4; Region: Spherulin4; pfam12138 859656009457 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 859656009458 substrate binding site [chemical binding]; other site 859656009459 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 859656009460 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 859656009461 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 859656009462 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 859656009463 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07764 859656009464 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 859656009465 Leucine-rich repeats; other site 859656009466 Substrate binding site [chemical binding]; other site 859656009467 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 859656009468 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 859656009469 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 859656009470 active site 859656009471 phosphorylation site [posttranslational modification] 859656009472 intermolecular recognition site; other site 859656009473 dimerization interface [polypeptide binding]; other site 859656009474 H-NS histone family; Region: Histone_HNS; pfam00816 859656009475 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 859656009476 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 859656009477 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 859656009478 Coenzyme A binding pocket [chemical binding]; other site 859656009479 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 859656009480 Evidence 4 : Homologs of previously reported genes of unknown function 859656009481 Evidence 4 : Homologs of previously reported genes of unknown function 859656009482 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 859656009483 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 859656009484 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; cl00436 859656009485 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 859656009486 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 859656009487 Cytochrome c; Region: Cytochrom_C; cl11414 859656009488 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 859656009489 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 859656009490 Cu(I) binding site [ion binding]; other site 859656009491 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 859656009492 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; cl01353 859656009493 McrBC 5-methylcytosine restriction system component; Region: McrBC; cl01737 859656009494 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 859656009495 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional; Region: PRK11331 859656009496 Walker A motif; other site 859656009497 ATP binding site [chemical binding]; other site 859656009498 Walker B motif; other site 859656009499 salicylyl-CoA 5-hydroxylase; Reviewed; Region: PRK08255 859656009500 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656009501 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656009502 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 859656009503 active site 859656009504 FMN binding site [chemical binding]; other site 859656009505 substrate binding site [chemical binding]; other site 859656009506 homotetramer interface [polypeptide binding]; other site 859656009507 catalytic residue [active] 859656009508 classical (c) SDRs; Region: SDR_c; cd05233 859656009509 NAD(P) binding site [chemical binding]; other site 859656009510 active site 859656009511 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 859656009512 Helix-turn-helix domains; Region: HTH; cl00088 859656009513 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 859656009514 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 859656009515 substrate binding site [chemical binding]; other site 859656009516 oxyanion hole (OAH) forming residues; other site 859656009517 trimer interface [polypeptide binding]; other site 859656009518 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 859656009519 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 859656009520 active site 859656009521 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 859656009522 AMP-binding enzyme; Region: AMP-binding; cl15778 859656009523 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 859656009524 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 859656009525 active site 859656009526 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 859656009527 homotrimer interaction site [polypeptide binding]; other site 859656009528 putative active site [active] 859656009529 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 859656009530 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 859656009531 putative substrate translocation pore; other site 859656009532 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 859656009533 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 859656009534 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 859656009535 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 859656009536 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 859656009537 DNA-binding site [nucleotide binding]; DNA binding site 859656009538 UTRA domain; Region: UTRA; cl01230 859656009539 Helix-turn-helix domains; Region: HTH; cl00088 859656009540 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_18; cd08357 859656009541 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 859656009542 putative metal binding site [ion binding]; other site 859656009543 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859656009544 Helix-turn-helix domains; Region: HTH; cl00088 859656009545 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_2; cd08427 859656009546 putative dimerization interface [polypeptide binding]; other site 859656009547 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 859656009548 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 859656009549 N-terminal plug; other site 859656009550 ligand-binding site [chemical binding]; other site 859656009551 Roadblock/LC7 domain; Region: Robl_LC7; cl00886 859656009552 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 859656009553 G1 box; other site 859656009554 GTP/Mg2+ binding site [chemical binding]; other site 859656009555 G2 box; other site 859656009556 Switch I region; other site 859656009557 G3 box; other site 859656009558 Switch II region; other site 859656009559 G4 box; other site 859656009560 G5 box; other site 859656009561 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 859656009562 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 859656009563 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 859656009564 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 859656009565 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 859656009566 PAAR motif; Region: PAAR_motif; cl15808 859656009567 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 859656009568 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 859656009569 Major Facilitator Superfamily; Region: MFS_1; pfam07690 859656009570 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 859656009571 putative substrate translocation pore; other site 859656009572 Helix-turn-helix domains; Region: HTH; cl00088 859656009573 MoxR-like ATPases [General function prediction only]; Region: COG0714 859656009574 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 859656009575 ATP binding site [chemical binding]; other site 859656009576 Walker A motif; other site 859656009577 Walker B motif; other site 859656009578 arginine finger; other site 859656009579 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 859656009580 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 859656009581 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 859656009582 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 859656009583 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_cladeA; cd00883 859656009584 active site clefts [active] 859656009585 zinc binding site [ion binding]; other site 859656009586 dimer interface [polypeptide binding]; other site 859656009587 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 859656009588 Sulfate transporter family; Region: Sulfate_transp; cl15842 859656009589 Sulfate transporter family; Region: Sulfate_transp; cl15842 859656009590 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4705 859656009591 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 859656009592 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 859656009593 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 859656009594 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 859656009595 PrpF protein; Region: PrpF; pfam04303 859656009596 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 859656009597 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 859656009598 substrate binding site [chemical binding]; other site 859656009599 ligand binding site [chemical binding]; other site 859656009600 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 859656009601 substrate binding site [chemical binding]; other site 859656009602 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 859656009603 Subgroup of Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS)...; Region: Ec2MCS_like_1; cd06117 859656009604 dimer interface [polypeptide binding]; other site 859656009605 active site 859656009606 citrylCoA binding site [chemical binding]; other site 859656009607 oxalacetate/citrate binding site [chemical binding]; other site 859656009608 coenzyme A binding site [chemical binding]; other site 859656009609 catalytic triad [active] 859656009610 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 859656009611 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 859656009612 tetramer interface [polypeptide binding]; other site 859656009613 active site 859656009614 Mg2+/Mn2+ binding site [ion binding]; other site 859656009615 Propionate catabolism activator; Region: PrpR_N; pfam06506 859656009616 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 859656009617 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 859656009618 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 859656009619 Walker A motif; other site 859656009620 ATP binding site [chemical binding]; other site 859656009621 Walker B motif; other site 859656009622 arginine finger; other site 859656009623 Predicted transcriptional regulator [Transcription]; Region: COG2944 859656009624 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 859656009625 RelB antitoxin; Region: RelB; cl01171 859656009626 Uncharacterized protein conserved in bacteria (DUF2242); Region: DUF2242; pfam10001 859656009627 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 859656009628 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 859656009629 active site 859656009630 metal binding site [ion binding]; metal-binding site 859656009631 Restriction endonuclease; Region: Mrr_cat; cl00516 859656009632 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 859656009633 ATP binding site [chemical binding]; other site 859656009634 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 859656009635 putative Mg++ binding site [ion binding]; other site 859656009636 Family description; Region: UvrD_C_2; cl15862 859656009637 AAA domain; Region: AAA_13; pfam13166 859656009638 Evidence 2b : Function of strongly homologous gene; Product type e : enzyme 859656009639 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 859656009640 RHS Repeat; Region: RHS_repeat; cl11982 859656009641 RHS Repeat; Region: RHS_repeat; cl11982 859656009642 RHS Repeat; Region: RHS_repeat; cl11982 859656009643 RHS Repeat; Region: RHS_repeat; cl11982 859656009644 RHS Repeat; Region: RHS_repeat; cl11982 859656009645 RHS Repeat; Region: RHS_repeat; cl11982 859656009646 Evidence 4 : Homologs of previously reported genes of unknown function 859656009647 Evidence 4 : Homologs of previously reported genes of unknown function 859656009648 potential frameshift: common BLAST hit: gi|116691398|ref|YP_836931.1| integrase catalytic subunit 859656009649 Helix-turn-helix domains; Region: HTH; cl00088 859656009650 Integrase core domain; Region: rve_3; cl15866 859656009651 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 859656009652 metal binding site [ion binding]; metal-binding site 859656009653 active site 859656009654 I-site; other site 859656009655 Predicted membrane protein [Function unknown]; Region: COG1289 859656009656 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 859656009657 Streptogramin lyase [Defense mechanisms]; Region: Vgb; COG4257 859656009658 Old yellow enzyme (OYE)-related FMN binding domain, group 2. 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_2_FMN; cd04733 859656009659 putative active site [active] 859656009660 putative FMN binding site [chemical binding]; other site 859656009661 putative substrate binding site [chemical binding]; other site 859656009662 putative catalytic residue [active] 859656009663 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 859656009664 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 859656009665 DNA binding residues [nucleotide binding] 859656009666 acyl-CoA thioesterase; Provisional; Region: PRK10531 859656009667 Pectinesterase; Region: Pectinesterase; cl01911 859656009668 bifunctional argininosuccinate lyase/N-acetylglutamate synthase; Provisional; Region: PRK12308 859656009669 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 859656009670 Coenzyme A binding pocket [chemical binding]; other site 859656009671 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 859656009672 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 859656009673 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 859656009674 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 859656009675 Type II secretory pathway, component HofQ [Intracellular trafficking and secretion]; Region: HofQ; COG4796 859656009676 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 859656009677 Secretin and TonB N terminus short domain; Region: STN; cl06624 859656009678 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 859656009679 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 859656009680 Cohesin domain, interaction parter of dockerin; Region: cohesin_like; cd08546 859656009681 dockerin binding interface; other site 859656009682 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 859656009683 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 859656009684 Walker A motif; other site 859656009685 ATP binding site [chemical binding]; other site 859656009686 Walker B motif; other site 859656009687 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 859656009688 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 859656009689 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 859656009690 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 859656009691 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 859656009692 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; cd02259 859656009693 putative active site [active] 859656009694 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 859656009695 RHS Repeat; Region: RHS_repeat; cl11982 859656009696 RHS Repeat; Region: RHS_repeat; cl11982 859656009697 RHS Repeat; Region: RHS_repeat; cl11982 859656009698 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 859656009699 RHS Repeat; Region: RHS_repeat; cl11982 859656009700 RHS Repeat; Region: RHS_repeat; cl11982 859656009701 RHS Repeat; Region: RHS_repeat; cl11982 859656009702 RHS Repeat; Region: RHS_repeat; cl11982 859656009703 RHS Repeat; Region: RHS_repeat; cl11982 859656009704 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 859656009705 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 859656009706 RHS Repeat; Region: RHS_repeat; cl11982 859656009707 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 859656009708 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 859656009709 putative transposase OrfB; Reviewed; Region: PHA02517 859656009710 PhoPQ-activated pathogenicity-related protein; Region: PhoPQ_related; cl01750 859656009711 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; cl15381 859656009712 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 859656009713 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 859656009714 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 859656009715 MatE; Region: MatE; cl10513 859656009716 MatE; Region: MatE; cl10513 859656009717 MbtH-like protein; Region: MbtH; cl01279 859656009718 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 859656009719 AMP-binding enzyme; Region: AMP-binding; cl15778 859656009720 AMP-binding enzyme; Region: AMP-binding; cl15778 859656009721 Phosphopantetheine attachment site; Region: PP-binding; cl09936 859656009722 peptide synthase; Provisional; Region: PRK12316 859656009723 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 859656009724 AMP-binding enzyme; Region: AMP-binding; cl15778 859656009725 AMP-binding enzyme; Region: AMP-binding; cl15778 859656009726 Phosphopantetheine attachment site; Region: PP-binding; cl09936 859656009727 peptide synthase; Provisional; Region: PRK12316 859656009728 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 859656009729 AMP-binding enzyme; Region: AMP-binding; cl15778 859656009730 AMP-binding enzyme; Region: AMP-binding; cl15778 859656009731 Phosphopantetheine attachment site; Region: PP-binding; cl09936 859656009732 peptide synthase; Provisional; Region: PRK12316 859656009733 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 859656009734 AMP-binding enzyme; Region: AMP-binding; cl15778 859656009735 AMP-binding enzyme; Region: AMP-binding; cl15778 859656009736 Phosphopantetheine attachment site; Region: PP-binding; cl09936 859656009737 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 859656009738 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 859656009739 AMP-binding enzyme; Region: AMP-binding; cl15778 859656009740 Phosphopantetheine attachment site; Region: PP-binding; cl09936 859656009741 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically 'activated' sulfate form important for the assimilation of...; Region: APSK; cd02027 859656009742 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 859656009743 ligand-binding site [chemical binding]; other site 859656009744 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 859656009745 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 859656009746 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 859656009747 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 859656009748 catalytic residue [active] 859656009749 Methyltransferase domain; Region: Methyltransf_31; pfam13847 859656009750 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 859656009751 S-adenosylmethionine binding site [chemical binding]; other site 859656009752 Evidence 4 : Homologs of previously reported genes of unknown function 859656009753 Evidence 4 : Homologs of previously reported genes of unknown function 859656009754 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 859656009755 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 859656009756 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 859656009757 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 859656009758 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 859656009759 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 859656009760 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 859656009761 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 859656009762 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 859656009763 putative hydrophobic ligand binding site [chemical binding]; other site 859656009764 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 859656009765 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 859656009766 putative substrate translocation pore; other site 859656009767 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 859656009768 aconitate hydratase; Provisional; Region: acnA; PRK12881 859656009769 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 859656009770 substrate binding site [chemical binding]; other site 859656009771 ligand binding site [chemical binding]; other site 859656009772 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 859656009773 substrate binding site [chemical binding]; other site 859656009774 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 859656009775 DNA-binding site [nucleotide binding]; DNA binding site 859656009776 FCD domain; Region: FCD; cl11656 859656009777 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 859656009778 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 859656009779 substrate binding pocket [chemical binding]; other site 859656009780 membrane-bound complex binding site; other site 859656009781 hinge residues; other site 859656009782 ATP-grasp domain; Region: ATP-grasp_4; cl03087 859656009783 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 859656009784 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 859656009785 putative substrate translocation pore; other site 859656009786 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 859656009787 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 859656009788 active site 859656009789 catalytic tetrad [active] 859656009790 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859656009791 Helix-turn-helix domains; Region: HTH; cl00088 859656009792 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 859656009793 putative dimerization interface [polypeptide binding]; other site 859656009794 putative effector binding pocket; other site 859656009795 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 859656009796 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 859656009797 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 859656009798 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 859656009799 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 859656009800 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 859656009801 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 859656009802 dimer interface [polypeptide binding]; other site 859656009803 active site 859656009804 CoA binding pocket [chemical binding]; other site 859656009805 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 859656009806 Chorismate mutase type II; Region: CM_2; cl00693 859656009807 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 859656009808 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 859656009809 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 859656009810 AMP nucleosidase; Provisional; Region: PRK08292 859656009811 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 859656009812 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 859656009813 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 859656009814 DDE superfamily endonuclease; Region: DDE_4; cl15789 859656009815 DDE superfamily endonuclease; Region: DDE_4; cl15789 859656009816 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 859656009817 dimer interface [polypeptide binding]; other site 859656009818 phosphorylation site [posttranslational modification] 859656009819 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 859656009820 ATP binding site [chemical binding]; other site 859656009821 Mg2+ binding site [ion binding]; other site 859656009822 G-X-G motif; other site 859656009823 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 859656009824 Helix-turn-helix domains; Region: HTH; cl00088 859656009825 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 859656009826 substrate binding pocket [chemical binding]; other site 859656009827 dimerization interface [polypeptide binding]; other site 859656009828 Rieske non-heme iron oxygenase (RO) family, Vanillate-O-demethylase oxygenase (VanA) and dicamba O-demethylase oxygenase (DdmC) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating...; Region: Rieske_RO_Alpha_VanA_DdmC; cd03532 859656009829 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 859656009830 alpha subunit interface [polypeptide binding]; other site 859656009831 active site 859656009832 substrate binding site [chemical binding]; other site 859656009833 Fe binding site [ion binding]; other site 859656009834 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : enzyme 859656009835 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : enzyme 859656009836 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 859656009837 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 859656009838 Helix-turn-helix domains; Region: HTH; cl00088 859656009839 p-hydroxycinnamoyl CoA hydratase/lyase; Validated; Region: PRK09120 859656009840 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 859656009841 substrate binding site [chemical binding]; other site 859656009842 oxyanion hole (OAH) forming residues; other site 859656009843 trimer interface [polypeptide binding]; other site 859656009844 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 859656009845 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 859656009846 NAD(P) binding site [chemical binding]; other site 859656009847 catalytic residues [active] 859656009848 feruloyl-CoA synthase; Reviewed; Region: PRK08180 859656009849 AMP-binding enzyme; Region: AMP-binding; cl15778 859656009850 Activator of aromatic catabolism; Region: XylR_N; pfam06505 859656009851 Heme NO binding; Region: HNOB; cl15268 859656009852 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 859656009853 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 859656009854 Walker A motif; other site 859656009855 ATP binding site [chemical binding]; other site 859656009856 Walker B motif; other site 859656009857 arginine finger; other site 859656009858 Helix-turn-helix domains; Region: HTH; cl00088 859656009859 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 859656009860 NAD-dependent benzaldehyde dehydrogenase II-like; Region: ALDH_BenzADH; cd07152 859656009861 NAD(P) binding site [chemical binding]; other site 859656009862 catalytic residues [active] 859656009863 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656009864 NAD(P) binding site [chemical binding]; other site 859656009865 3-alpha-hydroxysteroid dehydrogenase; Provisional; Region: PRK12428 859656009866 active site 859656009867 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 859656009868 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 859656009869 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 859656009870 Protein of unknown function, DUF393; Region: DUF393; cl01136 859656009871 Vitamin K-dependent gamma-carboxylase; Region: VKG_Carbox; cl02773 859656009872 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 859656009873 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : enzyme 859656009874 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : enzyme 859656009875 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 859656009876 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 859656009877 active site 859656009878 benzoate transport; Region: 2A0115; TIGR00895 859656009879 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 859656009880 putative substrate translocation pore; other site 859656009881 Maltooligosyl trehalose synthase [Carbohydrate transport and metabolism]; Region: TreY; COG3280 859656009882 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 859656009883 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 859656009884 active site 859656009885 catalytic site [active] 859656009886 potential frameshift: common BLAST hit: gi|17548457|ref|NP_521797.1| 4-alpha-glucanotransferase (amylomaltase) protein 859656009887 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 859656009888 putative bifunctional 4-alpha-glucanotransferase/malto-oligosyltrehalose synthase; Provisional; Region: PRK14507 859656009889 putative bifunctional 4-alpha-glucanotransferase/malto-oligosyltrehalose synthase; Provisional; Region: PRK14507 859656009890 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 859656009891 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 859656009892 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 859656009893 catalytic site [active] 859656009894 active site 859656009895 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 859656009896 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 859656009897 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 859656009898 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 859656009899 active site 859656009900 catalytic site [active] 859656009901 glycogen branching enzyme; Provisional; Region: PRK05402 859656009902 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 859656009903 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 859656009904 active site 859656009905 catalytic site [active] 859656009906 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 859656009907 trehalose synthase; Region: treS_nterm; TIGR02456 859656009908 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 859656009909 active site 859656009910 catalytic site [active] 859656009911 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; cl01286 859656009912 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 859656009913 active site 859656009914 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 859656009915 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 859656009916 active site 859656009917 homodimer interface [polypeptide binding]; other site 859656009918 catalytic site [active] 859656009919 acceptor binding site [chemical binding]; other site 859656009920 glycogen synthase; Provisional; Region: glgA; PRK00654 859656009921 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 859656009922 ADP-binding pocket [chemical binding]; other site 859656009923 homodimer interface [polypeptide binding]; other site 859656009924 peroxiredoxin; Region: AhpC; TIGR03137 859656009925 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 859656009926 dimer interface [polypeptide binding]; other site 859656009927 decamer (pentamer of dimers) interface [polypeptide binding]; other site 859656009928 catalytic triad [active] 859656009929 peroxidatic and resolving cysteines [active] 859656009930 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 859656009931 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 859656009932 catalytic residue [active] 859656009933 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 859656009934 catalytic residues [active] 859656009935 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 859656009936 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 859656009937 metal binding site 2 [ion binding]; metal-binding site 859656009938 putative DNA binding helix; other site 859656009939 metal binding site 1 [ion binding]; metal-binding site 859656009940 dimer interface [polypeptide binding]; other site 859656009941 structural Zn2+ binding site [ion binding]; other site 859656009942 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 859656009943 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 859656009944 G1 box; other site 859656009945 GTP/Mg2+ binding site [chemical binding]; other site 859656009946 Switch I region; other site 859656009947 G2 box; other site 859656009948 G3 box; other site 859656009949 Switch II region; other site 859656009950 G4 box; other site 859656009951 G5 box; other site 859656009952 Nucleoside recognition; Region: Gate; cl00486 859656009953 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 859656009954 Nucleoside recognition; Region: Gate; cl00486 859656009955 FeoA domain; Region: FeoA; cl00838 859656009956 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 859656009957 PAS fold; Region: PAS; pfam00989 859656009958 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 859656009959 putative active site [active] 859656009960 heme pocket [chemical binding]; other site 859656009961 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 859656009962 metal binding site [ion binding]; metal-binding site 859656009963 active site 859656009964 I-site; other site 859656009965 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 859656009966 dimerization interface [polypeptide binding]; other site 859656009967 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 859656009968 PAS fold; Region: PAS_3; pfam08447 859656009969 PAS fold; Region: PAS_3; pfam08447 859656009970 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 859656009971 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 859656009972 PAS domain; Region: PAS_9; pfam13426 859656009973 putative active site [active] 859656009974 heme pocket [chemical binding]; other site 859656009975 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 859656009976 metal binding site [ion binding]; metal-binding site 859656009977 active site 859656009978 I-site; other site 859656009979 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 859656009980 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 859656009981 PAS fold; Region: PAS_3; pfam08447 859656009982 putative active site [active] 859656009983 heme pocket [chemical binding]; other site 859656009984 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 859656009985 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 859656009986 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 859656009987 dimer interface [polypeptide binding]; other site 859656009988 putative CheW interface [polypeptide binding]; other site 859656009989 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 859656009990 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 859656009991 FAD binding pocket [chemical binding]; other site 859656009992 FAD binding motif [chemical binding]; other site 859656009993 phosphate binding motif [ion binding]; other site 859656009994 NAD binding pocket [chemical binding]; other site 859656009995 Helix-turn-helix domains; Region: HTH; cl00088 859656009996 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 859656009997 putative substrate binding pocket [chemical binding]; other site 859656009998 AC domain interface; other site 859656009999 catalytic triad [active] 859656010000 AB domain interface; other site 859656010001 interchain disulfide; other site 859656010002 Helix-turn-helix domains; Region: HTH; cl00088 859656010003 Protein of unknown function (DUF3757); Region: DUF3757; pfam12582 859656010004 Periplasmic glucans biosynthesis protein [Inorganic ion transport and metabolism]; Region: MdoG; COG3131 859656010005 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 859656010006 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 859656010007 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 859656010008 Coenzyme A binding pocket [chemical binding]; other site 859656010009 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4861 859656010010 Uncharacterized protein conserved in bacteria (DUF2186); Region: DUF2186; pfam09952 859656010011 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 859656010012 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 859656010013 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 859656010014 metal binding site [ion binding]; metal-binding site 859656010015 dimer interface [polypeptide binding]; other site 859656010016 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 859656010017 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 859656010018 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 859656010019 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 859656010020 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 859656010021 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 859656010022 putative substrate translocation pore; other site 859656010023 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 859656010024 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD_like; cd08296 859656010025 putative NAD(P) binding site [chemical binding]; other site 859656010026 putative substrate binding site [chemical binding]; other site 859656010027 catalytic Zn binding site [ion binding]; other site 859656010028 structural Zn binding site [ion binding]; other site 859656010029 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 859656010030 Transcriptional activator [Transcription]; Region: ChrR; COG3806 859656010031 Cupin domain; Region: Cupin_2; cl09118 859656010032 Cupin domain; Region: Cupin_2; cl09118 859656010033 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 859656010034 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 859656010035 classical (c) SDRs; Region: SDR_c; cd05233 859656010036 NAD(P) binding site [chemical binding]; other site 859656010037 active site 859656010038 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 859656010039 Helix-turn-helix domains; Region: HTH; cl00088 859656010040 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 859656010041 dimerization interface [polypeptide binding]; other site 859656010042 substrate binding pocket [chemical binding]; other site 859656010043 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 859656010044 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 859656010045 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 859656010046 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 859656010047 PF-ChiA is an uncharacterized chitinase found in the hyperthermophilic archaeon Pyrococcus furiosus with a glycosyl hydrolase family 18 (GH18) catalytic domain as well as a cellulose-binding domain. Members of this domain family are found not only in...; Region: GH18_PF-ChiA-like; cd06543 859656010048 active site 859656010049 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 859656010050 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 859656010051 putative NAD(P) binding site [chemical binding]; other site 859656010052 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 859656010053 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859656010054 Helix-turn-helix domains; Region: HTH; cl00088 859656010055 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 859656010056 putative effector binding pocket; other site 859656010057 dimerization interface [polypeptide binding]; other site 859656010058 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 859656010059 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 859656010060 dimer interface [polypeptide binding]; other site 859656010061 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859656010062 catalytic residue [active] 859656010063 Neutral trehalase [Carbohydrate transport and metabolism]; Region: TreA; COG1626 859656010064 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 859656010065 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 859656010066 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 859656010067 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 859656010068 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 859656010069 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 859656010070 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 859656010071 binding surface 859656010072 TPR motif; other site 859656010073 TPR repeat; Region: TPR_11; pfam13414 859656010074 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 859656010075 binding surface 859656010076 TPR motif; other site 859656010077 TPR repeat; Region: TPR_11; pfam13414 859656010078 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 859656010079 amino acid transporter; Region: 2A0306; TIGR00909 859656010080 Spore germination protein; Region: Spore_permease; cl15802 859656010081 MatE; Region: MatE; cl10513 859656010082 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 859656010083 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 859656010084 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 859656010085 DNA binding residues [nucleotide binding] 859656010086 dimerization interface [polypeptide binding]; other site 859656010087 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 859656010088 poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB; Region: deacetyl_PgaB; TIGR03938 859656010089 N-terminal putative catalytic polysaccharide deacetylase domain of bacterial poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB, and similar proteins; Region: CE4_PgaB_5s; cd10964 859656010090 putative active site [active] 859656010091 putative metal binding site [ion binding]; other site 859656010092 Uncharacterized BCR, COG1649; Region: DUF187; cl15398 859656010093 N-glycosyltransferase; Provisional; Region: PRK11204 859656010094 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 859656010095 DXD motif; other site 859656010096 PgaD-like protein; Region: PgaD; cl14676 859656010097 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 859656010098 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 859656010099 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 859656010100 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 859656010101 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 859656010102 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 859656010103 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 859656010104 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 859656010105 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 859656010106 Walker A/P-loop; other site 859656010107 ATP binding site [chemical binding]; other site 859656010108 Q-loop/lid; other site 859656010109 ABC transporter signature motif; other site 859656010110 Walker B; other site 859656010111 D-loop; other site 859656010112 H-loop/switch region; other site 859656010113 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 859656010114 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 859656010115 Coenzyme A binding pocket [chemical binding]; other site 859656010116 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 859656010117 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 859656010118 dimerization interface [polypeptide binding]; other site 859656010119 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 859656010120 dimer interface [polypeptide binding]; other site 859656010121 putative CheW interface [polypeptide binding]; other site 859656010122 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656010123 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 859656010124 NAD(P) binding site [chemical binding]; other site 859656010125 active site 859656010126 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 859656010127 CGNR zinc finger; Region: zf-CGNR; pfam11706 859656010128 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 859656010129 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 859656010130 FMN binding site [chemical binding]; other site 859656010131 substrate binding site [chemical binding]; other site 859656010132 putative catalytic residue [active] 859656010133 LysR family transcriptional regulator; Provisional; Region: PRK14997 859656010134 Helix-turn-helix domains; Region: HTH; cl00088 859656010135 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 859656010136 dimerization interface [polypeptide binding]; other site 859656010137 Helix-turn-helix domains; Region: HTH; cl00088 859656010138 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 859656010139 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 859656010140 H+ Antiporter protein; Region: 2A0121; TIGR00900 859656010141 putative substrate translocation pore; other site 859656010142 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 859656010143 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 859656010144 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 859656010145 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 859656010146 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 859656010147 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 859656010148 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 859656010149 active site 859656010150 phosphorylation site [posttranslational modification] 859656010151 intermolecular recognition site; other site 859656010152 dimerization interface [polypeptide binding]; other site 859656010153 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 859656010154 DNA binding site [nucleotide binding] 859656010155 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 859656010156 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 859656010157 dimer interface [polypeptide binding]; other site 859656010158 phosphorylation site [posttranslational modification] 859656010159 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 859656010160 Mg2+ binding site [ion binding]; other site 859656010161 G-X-G motif; other site 859656010162 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 859656010163 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 859656010164 FMN binding site [chemical binding]; other site 859656010165 substrate binding site [chemical binding]; other site 859656010166 putative catalytic residue [active] 859656010167 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 859656010168 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 859656010169 Ligand Binding Site [chemical binding]; other site 859656010170 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 859656010171 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 859656010172 Walker A/P-loop; other site 859656010173 ATP binding site [chemical binding]; other site 859656010174 ABC transporter signature motif; other site 859656010175 Walker B; other site 859656010176 D-loop; other site 859656010177 H-loop/switch region; other site 859656010178 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 859656010179 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 859656010180 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 859656010181 conserved hypothetical protein; Region: TIGR02231 859656010182 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 859656010183 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 859656010184 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 859656010185 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 859656010186 DNA binding residues [nucleotide binding] 859656010187 dimer interface [polypeptide binding]; other site 859656010188 putative metal binding site [ion binding]; other site 859656010189 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 859656010190 dimerization interface [polypeptide binding]; other site 859656010191 2-isopropylmalate synthase; Validated; Region: PRK03739 859656010192 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 859656010193 active site 859656010194 catalytic residues [active] 859656010195 metal binding site [ion binding]; metal-binding site 859656010196 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 859656010197 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 859656010198 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 859656010199 catalytic loop [active] 859656010200 iron binding site [ion binding]; other site 859656010201 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 859656010202 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 859656010203 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 859656010204 OsmC-like protein; Region: OsmC; cl00767 859656010205 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 859656010206 Ligand binding site; other site 859656010207 metal-binding site 859656010208 Putative cyclase; Region: Cyclase; cl00814 859656010209 Transposase, Mutator family; Region: Transposase_mut; pfam00872 859656010210 MULE transposase domain; Region: MULE; pfam10551 859656010211 PAS fold; Region: PAS_4; pfam08448 859656010212 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 859656010213 metal binding site [ion binding]; metal-binding site 859656010214 active site 859656010215 I-site; other site 859656010216 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 859656010217 H-NS histone family; Region: Histone_HNS; pfam00816 859656010218 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 859656010219 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 859656010220 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 859656010221 DNA-binding site [nucleotide binding]; DNA binding site 859656010222 UTRA domain; Region: UTRA; cl01230 859656010223 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 859656010224 trimer interface [polypeptide binding]; other site 859656010225 eyelet of channel; other site 859656010226 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 859656010227 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 859656010228 DNA binding residues [nucleotide binding] 859656010229 dimerization interface [polypeptide binding]; other site 859656010230 FlgN protein; Region: FlgN; cl09176 859656010231 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 859656010232 SAF-like; Region: SAF_2; pfam13144 859656010233 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 859656010234 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 859656010235 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 859656010236 Flagellar hook-associated protein [Cell motility and secretion]; Region: FlgK; COG1256 859656010237 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 859656010238 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 859656010239 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 859656010240 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 859656010241 FlgD Ig-like domain; Region: FlgD_ig; cl15790 859656010242 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 859656010243 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 859656010244 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 859656010245 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 859656010246 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 859656010247 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 859656010248 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 859656010249 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 859656010250 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 859656010251 Flagellar L-ring protein; Region: FlgH; cl00905 859656010252 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 859656010253 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 859656010254 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 859656010255 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 859656010256 Rod binding protein; Region: Rod-binding; cl01626 859656010257 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 859656010258 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 859656010259 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 859656010260 flagellar hook-associated protein 3; Region: flagell_flgL; TIGR02550 859656010261 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 859656010262 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 859656010263 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 859656010264 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656010265 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 859656010266 S-adenosylmethionine binding site [chemical binding]; other site 859656010267 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 859656010268 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 859656010269 dimer interface [polypeptide binding]; other site 859656010270 active site 859656010271 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 859656010272 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 859656010273 dimer interface [polypeptide binding]; other site 859656010274 active site 859656010275 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 859656010276 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 859656010277 NAD(P) binding site [chemical binding]; other site 859656010278 homotetramer interface [polypeptide binding]; other site 859656010279 homodimer interface [polypeptide binding]; other site 859656010280 active site 859656010281 Domain of unknown function, appears to be related to a diverse group of beta-hydroxydecanoyl ACP dehydratases (FabA) and beta-hydroxyacyl ACP dehydratases (FabZ). This group appears to lack the conserved active site histidine of FabA and FabZ; Region: FabA_like; cd01289 859656010282 putative active site 1 [active] 859656010283 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 859656010284 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 859656010285 dimer interface [polypeptide binding]; other site 859656010286 active site 859656010287 Predicted exporter [General function prediction only]; Region: COG4258 859656010288 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 859656010289 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 859656010290 active site 859656010291 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 859656010292 active sites [active] 859656010293 tetramer interface [polypeptide binding]; other site 859656010294 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 859656010295 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 859656010296 Ligand binding site; other site 859656010297 Putative Catalytic site; other site 859656010298 DXD motif; other site 859656010299 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 859656010300 putative acyl-acceptor binding pocket; other site 859656010301 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 859656010302 AMP-binding enzyme; Region: AMP-binding; cl15778 859656010303 FabA/Z, beta-hydroxyacyl-acyl carrier protein (ACP)-dehydratases: One of several distinct enzyme types of the dissociative, type II, fatty acid synthase system (found in bacteria and plants) required to complete successive cycles of fatty acid elongation; Region: FabA_FabZ; cd00493 859656010304 active site 2 [active] 859656010305 dimer interface [polypeptide binding]; other site 859656010306 active site 1 [active] 859656010307 Predicted membrane protein [Function unknown]; Region: COG4648 859656010308 Phosphopantetheine attachment site; Region: PP-binding; cl09936 859656010309 Phosphopantetheine attachment site; Region: PP-binding; cl09936 859656010310 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 859656010311 putative acyl-acceptor binding pocket; other site 859656010312 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 859656010313 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 859656010314 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 859656010315 FliP family; Region: FliP; cl00593 859656010316 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 859656010317 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 859656010318 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 859656010319 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 859656010320 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 859656010321 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 859656010322 PAS fold; Region: PAS_4; pfam08448 859656010323 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 859656010324 metal binding site [ion binding]; metal-binding site 859656010325 active site 859656010326 I-site; other site 859656010327 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 859656010328 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 859656010329 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 859656010330 active site 859656010331 phosphorylation site [posttranslational modification] 859656010332 intermolecular recognition site; other site 859656010333 dimerization interface [polypeptide binding]; other site 859656010334 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 859656010335 DNA binding residues [nucleotide binding] 859656010336 dimerization interface [polypeptide binding]; other site 859656010337 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 859656010338 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 859656010339 flagellar capping protein; Validated; Region: fliD; PRK08724 859656010340 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 859656010341 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 859656010342 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 859656010343 Flagellar protein FliS; Region: FliS; cl00654 859656010344 Flagellar protein FliT; Region: FliT; cl05125 859656010345 Helix-turn-helix domains; Region: HTH; cl00088 859656010346 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 859656010347 putative metal binding site; other site 859656010348 Mannosyltransferase OCH1 and related enzymes [Cell envelope biogenesis, outer membrane]; Region: OCH1; COG3774 859656010349 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 859656010350 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 859656010351 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 859656010352 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 859656010353 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 859656010354 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 859656010355 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 859656010356 FliG C-terminal domain; Region: FliG_C; pfam01706 859656010357 flagellar assembly protein H; Validated; Region: fliH; PRK05687 859656010358 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 859656010359 Flagellar assembly protein FliH; Region: FliH; pfam02108 859656010360 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 859656010361 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 859656010362 Walker A motif/ATP binding site; other site 859656010363 Walker B motif; other site 859656010364 flagellar biosynthesis chaperone; Validated; Region: fliJ; cl09161 859656010365 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 859656010366 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 859656010367 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 859656010368 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 859656010369 active site residue [active] 859656010370 Cache domain; Region: Cache_1; pfam02743 859656010371 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 859656010372 metal binding site [ion binding]; metal-binding site 859656010373 active site 859656010374 I-site; other site 859656010375 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 859656010376 TPR motif; other site 859656010377 TPR repeat; Region: TPR_11; pfam13414 859656010378 binding surface 859656010379 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 859656010380 metal binding site [ion binding]; metal-binding site 859656010381 active site 859656010382 I-site; other site 859656010383 BON domain; Region: BON; cl02771 859656010384 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 859656010385 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 859656010386 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 859656010387 Protein of unknown function (DUF1345); Region: DUF1345; cl01753 859656010388 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 859656010389 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 859656010390 Major Facilitator Superfamily; Region: MFS_1; pfam07690 859656010391 putative substrate translocation pore; other site 859656010392 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 859656010393 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 859656010394 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 859656010395 N-terminal plug; other site 859656010396 ligand-binding site [chemical binding]; other site 859656010397 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 859656010398 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 859656010399 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 859656010400 DNA binding residues [nucleotide binding] 859656010401 Secretin and TonB N terminus short domain; Region: STN; cl06624 859656010402 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 859656010403 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 859656010404 N-terminal plug; other site 859656010405 ligand-binding site [chemical binding]; other site 859656010406 2,3-diaminopropionate biosynthesis protein SbnA; Region: PLP_SbnA_fam; TIGR03945 859656010407 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 859656010408 dimer interface [polypeptide binding]; other site 859656010409 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859656010410 catalytic residue [active] 859656010411 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656010412 2,3-diaminopropionate biosynthesis protein SbnB; Region: dehyd_SbnB_fam; TIGR03944 859656010413 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 859656010414 IucA / IucC family; Region: IucA_IucC; pfam04183 859656010415 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 859656010416 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 859656010417 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 859656010418 IucA / IucC family; Region: IucA_IucC; pfam04183 859656010419 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 859656010420 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 859656010421 IucA / IucC family; Region: IucA_IucC; pfam04183 859656010422 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 859656010423 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 859656010424 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 859656010425 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme PvsE; Region: PLPDE_III_PvsE_like; cd06843 859656010426 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 859656010427 dimer interface [polypeptide binding]; other site 859656010428 active site 859656010429 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 859656010430 catalytic residues [active] 859656010431 substrate binding site [chemical binding]; other site 859656010432 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 859656010433 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 859656010434 Adenylation domain of proteins similar to ATP-dependent polynucleotide ligases; Region: Adenylation_DNA_ligase_like; cl12015 859656010435 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 859656010436 Zn2+ binding site [ion binding]; other site 859656010437 Mg2+ binding site [ion binding]; other site 859656010438 AAA domain; Region: AAA_33; pfam13671 859656010439 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 859656010440 RHS Repeat; Region: RHS_repeat; cl11982 859656010441 RHS Repeat; Region: RHS_repeat; cl11982 859656010442 RHS Repeat; Region: RHS_repeat; cl11982 859656010443 RHS Repeat; Region: RHS_repeat; cl11982 859656010444 RHS Repeat; Region: RHS_repeat; cl11982 859656010445 RHS Repeat; Region: RHS_repeat; cl11982 859656010446 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 859656010447 RHS Repeat; Region: RHS_repeat; cl11982 859656010448 RHS Repeat; Region: RHS_repeat; cl11982 859656010449 RHS Repeat; Region: RHS_repeat; cl11982 859656010450 RHS Repeat; Region: RHS_repeat; cl11982 859656010451 RHS Repeat; Region: RHS_repeat; cl11982 859656010452 RHS Repeat; Region: RHS_repeat; cl11982 859656010453 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 859656010454 RHS Repeat; Region: RHS_repeat; cl11982 859656010455 RHS Repeat; Region: RHS_repeat; cl11982 859656010456 RHS Repeat; Region: RHS_repeat; cl11982 859656010457 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 859656010458 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 859656010459 DDE superfamily endonuclease; Region: DDE_4; cl15789 859656010460 DDE superfamily endonuclease; Region: DDE_4; cl15789 859656010461 Evidence 2b : Function of strongly homologous gene; Product type e : enzyme 859656010462 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 859656010463 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 859656010464 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 859656010465 Walker A motif; other site 859656010466 ATP binding site [chemical binding]; other site 859656010467 Walker B motif; other site 859656010468 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 859656010469 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 859656010470 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 859656010471 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 859656010472 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 859656010473 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 859656010474 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 859656010475 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 859656010476 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 859656010477 Type II secretory pathway, component HofQ [Intracellular trafficking and secretion]; Region: HofQ; COG4796 859656010478 Secretin and TonB N terminus short domain; Region: STN; cl06624 859656010479 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 859656010480 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 859656010481 Type II cohesin domain, interaction partner of dockerin; Region: Type_II_cohesin; cd08547 859656010482 dockerin binding interface; other site 859656010483 potential frameshift: common BLAST hit: gi|17548306|ref|NP_521646.1| RHS-related protein 859656010484 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 859656010485 RHS Repeat; Region: RHS_repeat; cl11982 859656010486 RHS Repeat; Region: RHS_repeat; cl11982 859656010487 RHS Repeat; Region: RHS_repeat; cl11982 859656010488 RHS Repeat; Region: RHS_repeat; cl11982 859656010489 RHS Repeat; Region: RHS_repeat; cl11982 859656010490 RHS Repeat; Region: RHS_repeat; cl11982 859656010491 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 859656010492 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 859656010493 RHS Repeat; Region: RHS_repeat; cl11982 859656010494 RHS Repeat; Region: RHS_repeat; cl11982 859656010495 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 859656010496 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 859656010497 putative oxidoreductase/HEAT repeat-containing protein; Provisional; Region: PRK13800 859656010498 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 859656010499 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 859656010500 RHS Repeat; Region: RHS_repeat; cl11982 859656010501 RHS Repeat; Region: RHS_repeat; cl11982 859656010502 RHS Repeat; Region: RHS_repeat; cl11982 859656010503 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 859656010504 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 859656010505 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 859656010506 DDE superfamily endonuclease; Region: DDE_4; cl15789 859656010507 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 859656010508 DDE superfamily endonuclease; Region: DDE_4; cl15789 859656010509 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 859656010510 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 859656010511 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 859656010512 DDE superfamily endonuclease; Region: DDE_4; cl15789 859656010513 DDE superfamily endonuclease; Region: DDE_4; cl15789 859656010514 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 859656010515 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 859656010516 Walker A/P-loop; other site 859656010517 ATP binding site [chemical binding]; other site 859656010518 Q-loop/lid; other site 859656010519 ABC transporter signature motif; other site 859656010520 Walker B; other site 859656010521 D-loop; other site 859656010522 H-loop/switch region; other site 859656010523 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 859656010524 dimer interface [polypeptide binding]; other site 859656010525 conserved gate region; other site 859656010526 putative PBP binding loops; other site 859656010527 ABC-ATPase subunit interface; other site 859656010528 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 859656010529 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 859656010530 substrate binding pocket [chemical binding]; other site 859656010531 membrane-bound complex binding site; other site 859656010532 hinge residues; other site 859656010533 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 859656010534 Helix-turn-helix domains; Region: HTH; cl00088 859656010535 AsnC family; Region: AsnC_trans_reg; pfam01037 859656010536 ornithine cyclodeaminase; Validated; Region: PRK07589 859656010537 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656010538 Amidinotransferase; Region: Amidinotransf; cl12043 859656010539 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 859656010540 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 859656010541 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 859656010542 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 859656010543 motif II; other site 859656010544 Protein of unknown function (DUF3005); Region: DUF3005; pfam11448 859656010545 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 859656010546 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 859656010547 active site 859656010548 hypothetical protein; Provisional; Region: PRK08262 859656010549 M20 Peptidase, carboxypeptidase yscS; Region: M20_yscS; cd05674 859656010550 metal binding site [ion binding]; metal-binding site 859656010551 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 859656010552 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 859656010553 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 859656010554 dimer interface [polypeptide binding]; other site 859656010555 phosphorylation site [posttranslational modification] 859656010556 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 859656010557 ATP binding site [chemical binding]; other site 859656010558 Mg2+ binding site [ion binding]; other site 859656010559 G-X-G motif; other site 859656010560 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 859656010561 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 859656010562 active site 859656010563 phosphorylation site [posttranslational modification] 859656010564 intermolecular recognition site; other site 859656010565 dimerization interface [polypeptide binding]; other site 859656010566 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 859656010567 DNA binding site [nucleotide binding] 859656010568 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 859656010569 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 859656010570 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 859656010571 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 859656010572 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 859656010573 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 859656010574 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 859656010575 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 859656010576 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 859656010577 nucleotide binding site/active site [active] 859656010578 HIT family signature motif; other site 859656010579 catalytic residue [active] 859656010580 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 859656010581 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 859656010582 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 859656010583 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656010584 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 859656010585 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 859656010586 dimer interface [polypeptide binding]; other site 859656010587 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 859656010588 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 859656010589 dimerization interface [polypeptide binding]; other site 859656010590 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 859656010591 dimer interface [polypeptide binding]; other site 859656010592 putative CheW interface [polypeptide binding]; other site 859656010593 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK15489 859656010594 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 859656010595 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 859656010596 Bacteriophage N adsorption protein A C-term; Region: NfrA_C; pfam13283 859656010597 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 859656010598 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 859656010599 active site 859656010600 homodimer interface [polypeptide binding]; other site 859656010601 Putative NodB-like catalytic domain of uncharacterized proteins found in bacteria; Region: CE4_COG5298; cd10923 859656010602 Uncharacterized protein conserved in bacteria (DUF2334); Region: DUF2334; pfam10096 859656010603 NodB motif; other site 859656010604 putative active site [active] 859656010605 putative catalytic site [active] 859656010606 putative Zn binding site [ion binding]; other site 859656010607 Mechanosensitive ion channel; Region: MS_channel; pfam00924 859656010608 PAAR motif; Region: PAAR_motif; cl15808 859656010609 Protein of unknown function (DUF2875); Region: DUF2875; pfam11394 859656010610 Protein of unknown function (DUF3274); Region: DUF3274; pfam11678 859656010611 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 859656010612 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 859656010613 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 859656010614 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 859656010615 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 859656010616 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 859656010617 metal binding site [ion binding]; metal-binding site 859656010618 active site 859656010619 I-site; other site 859656010620 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 859656010621 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 859656010622 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 859656010623 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14950 859656010624 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 859656010625 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 859656010626 active site 859656010627 phosphorylation site [posttranslational modification] 859656010628 intermolecular recognition site; other site 859656010629 dimerization interface [polypeptide binding]; other site 859656010630 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 859656010631 DNA binding site [nucleotide binding] 859656010632 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 859656010633 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 859656010634 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 859656010635 ATP binding site [chemical binding]; other site 859656010636 Mg2+ binding site [ion binding]; other site 859656010637 G-X-G motif; other site 859656010638 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 859656010639 NADH(P)-binding; Region: NAD_binding_10; pfam13460 859656010640 NAD binding site [chemical binding]; other site 859656010641 putative active site [active] 859656010642 substrate binding site [chemical binding]; other site 859656010643 Predicted transcriptional regulator [Transcription]; Region: COG1959 859656010644 Helix-turn-helix domains; Region: HTH; cl00088 859656010645 Helix-turn-helix domains; Region: HTH; cl00088 859656010646 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 859656010647 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 859656010648 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 859656010649 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 859656010650 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 859656010651 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : regulator 859656010652 Peptidase family M1; Region: Peptidase_M1; pfam01433 859656010653 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 859656010654 Zn binding site [ion binding]; other site 859656010655 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 859656010656 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 859656010657 active site 859656010658 metal binding site [ion binding]; metal-binding site 859656010659 hexamer interface [polypeptide binding]; other site 859656010660 High-affinity nickel-transport protein; Region: NicO; cl00964 859656010661 High-affinity nickel-transport protein; Region: NicO; cl00964 859656010662 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 859656010663 putative metal binding site [ion binding]; other site 859656010664 putative homodimer interface [polypeptide binding]; other site 859656010665 putative homotetramer interface [polypeptide binding]; other site 859656010666 putative homodimer-homodimer interface [polypeptide binding]; other site 859656010667 putative allosteric switch controlling residues; other site 859656010668 Chromate resistance exported protein; Region: Chrome_Resist; cl01744 859656010669 Chromate transporter; Region: Chromate_transp; pfam02417 859656010670 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 859656010671 Chromate transporter; Region: Chromate_transp; pfam02417 859656010672 Chromate resistance exported protein; Region: Chrome_Resist; cl01744 859656010673 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 859656010674 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 859656010675 Coenzyme A binding pocket [chemical binding]; other site 859656010676 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859656010677 Helix-turn-helix domains; Region: HTH; cl00088 859656010678 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 859656010679 dimerization interface [polypeptide binding]; other site 859656010680 hypothetical protein; Validated; Region: PRK09169 859656010681 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 859656010682 metal binding triad [ion binding]; metal-binding site 859656010683 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859656010684 Helix-turn-helix domains; Region: HTH; cl00088 859656010685 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 859656010686 dimerization interface [polypeptide binding]; other site 859656010687 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 859656010688 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 859656010689 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 859656010690 Evidence 4 : Homologs of previously reported genes of unknown function 859656010691 DDE superfamily endonuclease; Region: DDE_4; cl15789 859656010692 Hexameric tyrosine-coordinated heme protein (HTHP); Region: HTHP; pfam11534 859656010693 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 859656010694 Low-spin heme binding site [chemical binding]; other site 859656010695 D-pathway; other site 859656010696 Putative water exit pathway; other site 859656010697 Binuclear center (active site) [active] 859656010698 K-pathway; other site 859656010699 Putative proton exit pathway; other site 859656010700 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 859656010701 Cytochrome c; Region: Cytochrom_C; cl11414 859656010702 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 859656010703 Cu(I) binding site [ion binding]; other site 859656010704 putative transposase OrfB; Reviewed; Region: PHA02517 859656010705 haemagglutination activity domain; Region: Haemagg_act; cl05436 859656010706 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 859656010707 Protein of unknown function (DUF342); Region: DUF342; pfam03961 859656010708 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 859656010709 DDE superfamily endonuclease; Region: DDE_4; cl15789 859656010710 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 859656010711 DDE superfamily endonuclease; Region: DDE_4; cl15789 859656010712 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pm : membrane component 859656010713 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 859656010714 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 859656010715 Surface antigen; Region: Bac_surface_Ag; cl03097 859656010716 PPIC-type PPIASE domain; Region: Rotamase; cl08278 859656010717 ribonucleoside transporter; Reviewed; Region: nepI; PRK10213 859656010718 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pf : factor 859656010719 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : enzyme 859656010720 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : enzyme 859656010721 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 859656010722 non-specific DNA binding site [nucleotide binding]; other site 859656010723 salt bridge; other site 859656010724 sequence-specific DNA binding site [nucleotide binding]; other site 859656010725 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 859656010726 AzlC protein; Region: AzlC; cl00570 859656010727 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 859656010728 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 859656010729 putative DNA binding site [nucleotide binding]; other site 859656010730 putative Zn2+ binding site [ion binding]; other site 859656010731 AsnC family; Region: AsnC_trans_reg; pfam01037 859656010732 Cellobiohydrolase A (1,4-beta-cellobiosidase A) [Carbohydrate transport and metabolism]; Region: CelA; COG5297 859656010733 Glycosyl hydrolases family 6; Region: Glyco_hydro_6; pfam01341 859656010734 Cellulose binding domain; Region: CBM_2; cl02709 859656010735 Evidence 2b : Function of strongly homologous gene; Product type e : enzyme 859656010736 Fic family protein [Function unknown]; Region: COG3177 859656010737 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 859656010738 Fic/DOC family; Region: Fic; cl00960 859656010739 haemagglutination activity domain; Region: Haemagg_act; cl05436 859656010740 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 859656010741 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 859656010742 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 859656010743 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 859656010744 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 859656010745 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 859656010746 Domain of unknown function (DUF1910); Region: DUF1910; pfam08928 859656010747 Domain of unknown function (DUF1911); Region: DUF1911; pfam08929 859656010748 Evidence 4 : Homologs of previously reported genes of unknown function 859656010749 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 859656010750 Surface antigen; Region: Bac_surface_Ag; cl03097 859656010751 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 859656010752 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 859656010753 Surface antigen; Region: Bac_surface_Ag; cl03097 859656010754 Evidence 4 : Homologs of previously reported genes of unknown function 859656010755 Helix-turn-helix domains; Region: HTH; cl00088 859656010756 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 859656010757 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 859656010758 HTH-like domain; Region: HTH_21; pfam13276 859656010759 Integrase core domain; Region: rve; cl01316 859656010760 Integrase core domain; Region: rve_3; cl15866 859656010761 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 859656010762 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 859656010763 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 859656010764 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 859656010765 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 859656010766 Helix-turn-helix domains; Region: HTH; cl00088 859656010767 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 859656010768 short chain dehydrogenase; Provisional; Region: PRK06179 859656010769 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 859656010770 NADP binding site [chemical binding]; other site 859656010771 active site 859656010772 steroid binding site; other site 859656010773 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656010774 active site 859656010775 putative phosphatase; Provisional; Region: PRK11587 859656010776 ParB-like partition proteins; Region: parB_part; TIGR00180 859656010777 Evidence 4 : Homologs of previously reported genes of unknown function 859656010778 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 859656010779 catalytic residues [active] 859656010780 DDE superfamily endonuclease; Region: DDE_4; cl15789 859656010781 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 859656010782 catalytic residues [active] 859656010783 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 859656010784 Helix-turn-helix domains; Region: HTH; cl00088 859656010785 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 859656010786 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 859656010787 Evidence 4 : Homologs of previously reported genes of unknown function 859656010788 Protein of unknown function (DUF1484); Region: DUF1484; pfam07363 859656010789 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : regulator 859656010790 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 859656010791 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 859656010792 putative ligand binding site [chemical binding]; other site 859656010793 citrate-proton symporter; Provisional; Region: PRK15075 859656010794 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 859656010795 putative substrate translocation pore; other site 859656010796 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 859656010797 Helix-turn-helix domains; Region: HTH; cl00088 859656010798 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 859656010799 dimerization interface [polypeptide binding]; other site 859656010800 substrate binding pocket [chemical binding]; other site 859656010801 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 859656010802 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 859656010803 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 859656010804 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 859656010805 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 859656010806 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 859656010807 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 859656010808 putative active site [active] 859656010809 catalytic site [active] 859656010810 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 859656010811 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 859656010812 putative active site [active] 859656010813 catalytic site [active] 859656010814 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 859656010815 Sel1 repeat; Region: Sel1; cl02723 859656010816 Evidence 4 : Homologs of previously reported genes of unknown function 859656010817 Evidence 4 : Homologs of previously reported genes of unknown function 859656010818 DDE superfamily endonuclease; Region: DDE_5; cl02413 859656010819 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 859656010820 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 859656010821 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 859656010822 motif II; other site 859656010823 Evidence 4 : Homologs of previously reported genes of unknown function 859656010824 Protein of unknown function (DUF2924); Region: DUF2924; pfam11149 859656010825 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 859656010826 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 859656010827 catalytic residues [active] 859656010828 catalytic nucleophile [active] 859656010829 Presynaptic Site I dimer interface [polypeptide binding]; other site 859656010830 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 859656010831 Synaptic Flat tetramer interface [polypeptide binding]; other site 859656010832 Synaptic Site I dimer interface [polypeptide binding]; other site 859656010833 DNA binding site [nucleotide binding] 859656010834 Recombinase; Region: Recombinase; pfam07508 859656010835 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 859656010836 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 859656010837 Response regulator receiver domain; Region: Response_reg; pfam00072 859656010838 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 859656010839 active site 859656010840 phosphorylation site [posttranslational modification] 859656010841 intermolecular recognition site; other site 859656010842 dimerization interface [polypeptide binding]; other site 859656010843 Evidence 4 : Homologs of previously reported genes of unknown function 859656010844 Helix-turn-helix domains; Region: HTH; cl00088 859656010845 WHG domain; Region: WHG; pfam13305 859656010846 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 859656010847 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 859656010848 dimer interface [polypeptide binding]; other site 859656010849 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 859656010850 Peptidase domain in the S53 family; Region: Peptidases_S53_like; cd05562 859656010851 putative active site [active] 859656010852 putative catalytic triad [active] 859656010853 Peptidase domain in the S53 family; Region: Peptidases_S53_like; cd05562 859656010854 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 859656010855 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 859656010856 Phenylacetic acid degradation B; Region: PaaB; cl01371 859656010857 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 859656010858 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 859656010859 Domain of unknown function DUF59; Region: DUF59; cl00941 859656010860 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 859656010861 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 859656010862 FAD binding pocket [chemical binding]; other site 859656010863 FAD binding motif [chemical binding]; other site 859656010864 phosphate binding motif [ion binding]; other site 859656010865 beta-alpha-beta structure motif; other site 859656010866 NAD(p) ribose binding residues [chemical binding]; other site 859656010867 NAD binding pocket [chemical binding]; other site 859656010868 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 859656010869 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 859656010870 catalytic loop [active] 859656010871 iron binding site [ion binding]; other site 859656010872 Uncharacterized protein conserved in bacteria (DUF2322); Region: DUF2322; cl01820 859656010873 Major Facilitator Superfamily; Region: MFS_1; pfam07690 859656010874 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 859656010875 Protein of Unknown function (DUF2784); Region: DUF2784; pfam10861 859656010876 Helix-turn-helix domains; Region: HTH; cl00088 859656010877 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 859656010878 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 859656010879 Helix-turn-helix domains; Region: HTH; cl00088 859656010880 Cysteine dioxygenase type I; Region: CDO_I; cl15835 859656010881 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 859656010882 active site residue [active] 859656010883 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 859656010884 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 859656010885 active site residue [active] 859656010886 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 859656010887 active site residue [active] 859656010888 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 859656010889 active site residue [active] 859656010890 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 859656010891 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 859656010892 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 859656010893 catalytic residue [active] 859656010894 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 859656010895 putative FMN binding site [chemical binding]; other site 859656010896 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 859656010897 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 859656010898 catalytic triad [active] 859656010899 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 859656010900 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 859656010901 homodimer interface [polypeptide binding]; other site 859656010902 Walker A motif; other site 859656010903 ATP binding site [chemical binding]; other site 859656010904 hydroxycobalamin binding site [chemical binding]; other site 859656010905 Walker B motif; other site 859656010906 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 859656010907 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 859656010908 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 859656010909 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 859656010910 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 859656010911 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 859656010912 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 859656010913 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 859656010914 Cobalamin synthesis G C-terminus; Region: CbiG_C; cl12133 859656010915 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 859656010916 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 859656010917 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 859656010918 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 859656010919 CbiD; Region: CbiD; cl00828 859656010920 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 859656010921 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 859656010922 putative active site [active] 859656010923 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), C-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_C; cd03414 859656010924 putative active site [active] 859656010925 Precorrin isomerase [Coenzyme metabolism]; Region: CobH; cl00913 859656010926 Precorrin-8X methylmutase; Region: CbiC; pfam02570 859656010927 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 859656010928 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 859656010929 cobaltochelatase subunit; Region: Cob-chelat-sub; TIGR02442 859656010930 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 859656010931 Magnesium chelatase: Mg-chelatase catalyses the insertion of Mg into protoporphyrin IX (Proto). In chlorophyll biosynthesis, insertion of Mg2+ into protoporphyrin IX is catalysed by magnesium chelatase in an ATP-dependent reaction. Magnesium chelatase is...; Region: vWA_Magnesium_chelatase; cd01451 859656010932 metal ion-dependent adhesion site (MIDAS); other site 859656010933 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 859656010934 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 859656010935 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 859656010936 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 859656010937 dimer interface [polypeptide binding]; other site 859656010938 [2Fe-2S] cluster binding site [ion binding]; other site 859656010939 High-affinity nickel-transport protein; Region: NicO; cl00964 859656010940 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 859656010941 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 859656010942 Walker A/P-loop; other site 859656010943 ATP binding site [chemical binding]; other site 859656010944 Q-loop/lid; other site 859656010945 ABC transporter signature motif; other site 859656010946 Walker B; other site 859656010947 D-loop; other site 859656010948 H-loop/switch region; other site 859656010949 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 859656010950 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 859656010951 dimer interface [polypeptide binding]; other site 859656010952 conserved gate region; other site 859656010953 putative PBP binding loops; other site 859656010954 ABC-ATPase subunit interface; other site 859656010955 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 859656010956 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 859656010957 dimer interface [polypeptide binding]; other site 859656010958 conserved gate region; other site 859656010959 putative PBP binding loops; other site 859656010960 ABC-ATPase subunit interface; other site 859656010961 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 859656010962 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 859656010963 substrate binding pocket [chemical binding]; other site 859656010964 membrane-bound complex binding site; other site 859656010965 hinge residues; other site 859656010966 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 859656010967 putative active site [active] 859656010968 OpgC protein; Region: OpgC_C; cl00792 859656010969 Acyltransferase family; Region: Acyl_transf_3; pfam01757 859656010970 YCII-related domain; Region: YCII; cl00999 859656010971 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 859656010972 Helix-turn-helix domains; Region: HTH; cl00088 859656010973 AsnC family; Region: AsnC_trans_reg; pfam01037 859656010974 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 859656010975 Aminocyclopropane-1-carboxylate deaminase (ACCD): Pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of 1-aminocyclopropane-L-carboxylate (ACC), a precursor of the plant hormone ethylene, to alpha-ketobutyrate and ammonia; Region: ACCD; cd06449 859656010976 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859656010977 catalytic residue [active] 859656010978 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 859656010979 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 859656010980 substrate binding site [chemical binding]; other site 859656010981 oxyanion hole (OAH) forming residues; other site 859656010982 trimer interface [polypeptide binding]; other site 859656010983 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 859656010984 enoyl-CoA hydratase; Provisional; Region: PRK09076 859656010985 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 859656010986 substrate binding site [chemical binding]; other site 859656010987 oxyanion hole (OAH) forming residues; other site 859656010988 trimer interface [polypeptide binding]; other site 859656010989 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656010990 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 859656010991 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 859656010992 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 859656010993 tetrameric interface [polypeptide binding]; other site 859656010994 NAD binding site [chemical binding]; other site 859656010995 catalytic residues [active] 859656010996 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 859656010997 AMP-binding enzyme; Region: AMP-binding; cl15778 859656010998 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 859656010999 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 859656011000 active site 859656011001 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 859656011002 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 859656011003 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 859656011004 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 859656011005 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 859656011006 HipA N-terminal domain; Region: Couple_hipA; cl11853 859656011007 HipA-like N-terminal domain; Region: HipA_N; pfam07805 859656011008 HipA-like C-terminal domain; Region: HipA_C; pfam07804 859656011009 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 859656011010 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 859656011011 Transcriptional regulators [Transcription]; Region: MarR; COG1846 859656011012 Helix-turn-helix domains; Region: HTH; cl00088 859656011013 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 859656011014 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 859656011015 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 859656011016 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 859656011017 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 859656011018 Uncharacterized conserved protein [Function unknown]; Region: COG5495 859656011019 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656011020 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 859656011021 Protein of unknown function (DUF3309); Region: DUF3309; pfam11752 859656011022 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 859656011023 Protein export membrane protein; Region: SecD_SecF; cl14618 859656011024 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 859656011025 substrate binding site [chemical binding]; other site 859656011026 oxyanion hole (OAH) forming residues; other site 859656011027 trimer interface [polypeptide binding]; other site 859656011028 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 859656011029 Leucine-rich repeats; other site 859656011030 Substrate binding site [chemical binding]; other site 859656011031 Antagonist of mitotic exit network protein 1; Region: AMN1; cl15308 859656011032 Leucine rich repeat; Region: LRR_8; pfam13855 859656011033 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 859656011034 Leucine-rich repeats; other site 859656011035 Substrate binding site [chemical binding]; other site 859656011036 TolB amino-terminal domain; Region: TolB_N; cl00639 859656011037 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 859656011038 Putative bacterial lipoprotein (DUF799); Region: DUF799; cl01813 859656011039 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 859656011040 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 859656011041 THF binding site; other site 859656011042 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 859656011043 substrate binding site [chemical binding]; other site 859656011044 THF binding site; other site 859656011045 zinc-binding site [ion binding]; other site 859656011046 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 859656011047 Helix-turn-helix domains; Region: HTH; cl00088 859656011048 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 859656011049 putative dimerization interface [polypeptide binding]; other site 859656011050 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 859656011051 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 859656011052 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 859656011053 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 859656011054 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 859656011055 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 859656011056 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 859656011057 active site 859656011058 ribulose/triose binding site [chemical binding]; other site 859656011059 phosphate binding site [ion binding]; other site 859656011060 substrate (anthranilate) binding pocket [chemical binding]; other site 859656011061 product (indole) binding pocket [chemical binding]; other site 859656011062 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 859656011063 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 859656011064 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 859656011065 Trimethylamine dehydrogenase (TMADH) and histamine dehydrogenase (HD) FMN-binding domain. TMADH is an iron-sulfur flavoprotein that catalyzes the oxidative demethylation of trimethylamine to form dimethylamine and formaldehyde. The protein forms a...; Region: TMADH_HD_FMN; cd02929 859656011066 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 859656011067 FMN binding site [chemical binding]; other site 859656011068 active site 859656011069 homodimer interface [polypeptide binding]; other site 859656011070 putative catalytic residue [active] 859656011071 4Fe-4S cluster binding site [ion binding]; other site 859656011072 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656011073 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 859656011074 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 859656011075 catalytic residue [active] 859656011076 B3/4 domain; Region: B3_4; cl11458 859656011077 EamA-like transporter family; Region: EamA; cl01037 859656011078 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 859656011079 Cupin domain; Region: Cupin_2; cl09118 859656011080 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 859656011081 Helix-turn-helix domains; Region: HTH; cl00088 859656011082 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 859656011083 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 859656011084 active site 859656011085 Predicted small integral membrane protein (DUF2165); Region: DUF2165; cl02290 859656011086 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 859656011087 fumarylacetoacetase; Region: PLN02856 859656011088 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 859656011089 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 859656011090 Cupin domain; Region: Cupin_2; cl09118 859656011091 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859656011092 Helix-turn-helix domains; Region: HTH; cl00088 859656011093 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 859656011094 substrate binding pocket [chemical binding]; other site 859656011095 dimerization interface [polypeptide binding]; other site 859656011096 RF-1 domain; Region: RF-1; cl02875 859656011097 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cl15780 859656011098 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; cd02259 859656011099 putative active site [active] 859656011100 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 859656011101 RHS Repeat; Region: RHS_repeat; cl11982 859656011102 RHS Repeat; Region: RHS_repeat; cl11982 859656011103 RHS Repeat; Region: RHS_repeat; cl11982 859656011104 RHS Repeat; Region: RHS_repeat; cl11982 859656011105 RHS Repeat; Region: RHS_repeat; cl11982 859656011106 RHS Repeat; Region: RHS_repeat; cl11982 859656011107 RHS Repeat; Region: RHS_repeat; cl11982 859656011108 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 859656011109 Protein of unknown function (DUF2783); Region: DUF2783; pfam10932 859656011110 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 859656011111 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656011112 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 859656011113 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 859656011114 Transcriptional regulator [Transcription]; Region: IclR; COG1414 859656011115 Helix-turn-helix domains; Region: HTH; cl00088 859656011116 Bacterial transcriptional regulator; Region: IclR; pfam01614 859656011117 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 859656011118 TM-ABC transporter signature motif; other site 859656011119 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 859656011120 TM-ABC transporter signature motif; other site 859656011121 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 859656011122 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 859656011123 Walker A/P-loop; other site 859656011124 ATP binding site [chemical binding]; other site 859656011125 Q-loop/lid; other site 859656011126 ABC transporter signature motif; other site 859656011127 Walker B; other site 859656011128 D-loop; other site 859656011129 H-loop/switch region; other site 859656011130 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 859656011131 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 859656011132 Walker A/P-loop; other site 859656011133 ATP binding site [chemical binding]; other site 859656011134 Q-loop/lid; other site 859656011135 ABC transporter signature motif; other site 859656011136 Walker B; other site 859656011137 D-loop; other site 859656011138 H-loop/switch region; other site 859656011139 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 859656011140 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 859656011141 EamA-like transporter family; Region: EamA; cl01037 859656011142 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 859656011143 Protein of unknown function (DUF1326); Region: DUF1326; cl02375 859656011144 Predicted acetyltransferase [General function prediction only]; Region: COG3153 859656011145 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 859656011146 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 859656011147 homodimer interface [polypeptide binding]; other site 859656011148 substrate-cofactor binding pocket; other site 859656011149 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859656011150 catalytic residue [active] 859656011151 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 859656011152 FMN-binding domain; Region: FMN_bind; cl01081 859656011153 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 859656011154 nucleophilic elbow; other site 859656011155 catalytic triad; other site 859656011156 L-aspartate dehydrogenase; Provisional; Region: PRK13303 859656011157 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656011158 Domain of unknown function DUF108; Region: DUF108; pfam01958 859656011159 Evidence 4 : Homologs of previously reported genes of unknown function 859656011160 Cupin superfamily (DUF985); Region: Cupin_5; cl01418 859656011161 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 859656011162 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 859656011163 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 859656011164 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 859656011165 active site 859656011166 homotetramer interface [polypeptide binding]; other site 859656011167 Evidence 4 : Homologs of previously reported genes of unknown function 859656011168 Domain of unknown function (DUF1911); Region: DUF1911; pfam08929 859656011169 Evidence 4 : Homologs of previously reported genes of unknown function 859656011170 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 859656011171 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 859656011172 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 859656011173 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 859656011174 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 859656011175 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 859656011176 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522; cl01406 859656011177 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 859656011178 Type VI secretion lipoprotein; Region: T6SS-SciN; cl01405 859656011179 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 859656011180 TPR motif; other site 859656011181 binding surface 859656011182 Protein of unknown function (DUF770); Region: DUF770; cl01402 859656011183 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 859656011184 Protein of unknown function (DUF877); Region: DUF877; pfam05943 859656011185 Protein of unknown function (DUF796); Region: DUF796; cl01226 859656011186 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 859656011187 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 859656011188 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 859656011189 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 859656011190 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 859656011191 Clp amino terminal domain; Region: Clp_N; pfam02861 859656011192 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 859656011193 Walker A motif; other site 859656011194 ATP binding site [chemical binding]; other site 859656011195 Walker B motif; other site 859656011196 arginine finger; other site 859656011197 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 859656011198 Walker A motif; other site 859656011199 ATP binding site [chemical binding]; other site 859656011200 Walker B motif; other site 859656011201 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 859656011202 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pc : carrier 859656011203 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 859656011204 Evidence 4 : Homologs of previously reported genes of unknown function 859656011205 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 859656011206 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 859656011207 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 859656011208 NADH dehydrogenase; Region: NADHdh; cl00469 859656011209 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 859656011210 Uncharacterized BCR, COG1649; Region: DUF187; cl15398 859656011211 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 859656011212 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 859656011213 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 859656011214 ligand binding site [chemical binding]; other site 859656011215 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; cl01611 859656011216 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 859656011217 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 859656011218 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 859656011219 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 859656011220 PAAR motif; Region: PAAR_motif; cl15808 859656011221 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 859656011222 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 859656011223 potential frameshift: common BLAST hit: gi|17548989|ref|NP_522329.1| VGR-related protein 859656011224 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 859656011225 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 859656011226 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 859656011227 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 859656011228 Evidence 4 : Homologs of previously reported genes of unknown function 859656011229 Catalytic domain, repeat 1, of vertebrate phospholipases, PLD1 and PLD2, and similar proteins; Region: PLDc_vPLD1_2_like_1; cd09104 859656011230 putative active site [active] 859656011231 catalytic site [active] 859656011232 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 859656011233 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 859656011234 Catalytic domain, repeat 2, of vertebrate phospholipases, PLD1 and PLD2, yeast PLDs, and similar proteins; Region: PLDc_vPLD1_2_yPLD_like_2; cd09141 859656011235 putative active site [active] 859656011236 catalytic site [active] 859656011237 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : transporter 859656011238 aspartate aminotransferase; Provisional; Region: PRK06108 859656011239 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 859656011240 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859656011241 homodimer interface [polypeptide binding]; other site 859656011242 catalytic residue [active] 859656011243 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859656011244 Helix-turn-helix domains; Region: HTH; cl00088 859656011245 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 859656011246 dimerization interface [polypeptide binding]; other site 859656011247 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 859656011248 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656011249 Cell division inhibitor SulA; Region: SulA; cl01880 859656011250 DNA Polymerase Y-family; Region: PolY_like; cd03468 859656011251 active site 859656011252 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 859656011253 DNA binding site [nucleotide binding] 859656011254 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 859656011255 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 859656011256 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 859656011257 generic binding surface II; other site 859656011258 generic binding surface I; other site 859656011259 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 859656011260 non-specific DNA binding site [nucleotide binding]; other site 859656011261 salt bridge; other site 859656011262 sequence-specific DNA binding site [nucleotide binding]; other site 859656011263 Putative anion permease YbiR. Based on sequence similarity, YbiR proteins are predicted to function as anion translocating permeases in eubacteria, archaea and plants. They belong to ArsB/NhaD superfamily of permeases that have been shown to translocate...; Region: YbiR_permease; cd01117 859656011264 transmembrane helices; other site 859656011265 elongation factor G; Reviewed; Region: PRK00007 859656011266 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 859656011267 G1 box; other site 859656011268 putative GEF interaction site [polypeptide binding]; other site 859656011269 GTP/Mg2+ binding site [chemical binding]; other site 859656011270 Switch I region; other site 859656011271 G2 box; other site 859656011272 G3 box; other site 859656011273 Switch II region; other site 859656011274 G4 box; other site 859656011275 G5 box; other site 859656011276 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 859656011277 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 859656011278 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 859656011279 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 859656011280 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 859656011281 ligand binding site [chemical binding]; other site 859656011282 flexible hinge region; other site 859656011283 Helix-turn-helix domains; Region: HTH; cl00088 859656011284 Protein of unknown function (DUF962); Region: DUF962; cl01879 859656011285 Ferredoxin [Energy production and conversion]; Region: COG1146 859656011286 4Fe-4S binding domain; Region: Fer4; cl02805 859656011287 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 859656011288 Peptidase M30; Region: Peptidase_M30; pfam10460 859656011289 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 859656011290 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : regulator 859656011291 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 859656011292 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 859656011293 Walker A/P-loop; other site 859656011294 ATP binding site [chemical binding]; other site 859656011295 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 859656011296 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 859656011297 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 859656011298 N-terminal plug; other site 859656011299 ligand-binding site [chemical binding]; other site 859656011300 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 859656011301 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 859656011302 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 859656011303 metal binding site [ion binding]; metal-binding site 859656011304 active site 859656011305 I-site; other site 859656011306 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 859656011307 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656011308 Predicted dehydrogenase [General function prediction only]; Region: COG0579 859656011309 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 859656011310 Helix-turn-helix domains; Region: HTH; cl00088 859656011311 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 859656011312 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 859656011313 Protein export membrane protein; Region: SecD_SecF; cl14618 859656011314 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 859656011315 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 859656011316 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 859656011317 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 859656011318 EamA-like transporter family; Region: EamA; cl01037 859656011319 AvrPphF-ORF-2; Region: AvrPphF-ORF-2; pfam09143 859656011320 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 859656011321 Helix-turn-helix domains; Region: HTH; cl00088 859656011322 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to regulators involved in the catabolism of aromatic compounds, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like_1; cd08447 859656011323 putative dimerization interface [polypeptide binding]; other site 859656011324 putative substrate binding pocket [chemical binding]; other site 859656011325 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 859656011326 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 859656011327 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 859656011328 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 859656011329 S-adenosylmethionine binding site [chemical binding]; other site 859656011330 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 859656011331 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 859656011332 putative active site [active] 859656011333 catalytic residue [active] 859656011334 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 859656011335 dimer interface [polypeptide binding]; other site 859656011336 NADP binding site [chemical binding]; other site 859656011337 catalytic residues [active] 859656011338 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 859656011339 D-galactonate transporter; Region: 2A0114; TIGR00893 859656011340 putative substrate translocation pore; other site 859656011341 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 859656011342 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 859656011343 active site 859656011344 tetramer interface [polypeptide binding]; other site 859656011345 galactarate dehydratase; Region: galactar-dH20; TIGR03248 859656011346 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 859656011347 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 859656011348 extended (e) SDRs; Region: SDR_e; cd08946 859656011349 NAD(P) binding site [chemical binding]; other site 859656011350 active site 859656011351 substrate binding site [chemical binding]; other site 859656011352 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 859656011353 Strictosidine synthase; Region: Str_synth; pfam03088 859656011354 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 859656011355 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 859656011356 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 859656011357 D-galactonate transporter; Region: 2A0114; TIGR00893 859656011358 putative substrate translocation pore; other site 859656011359 bifunctional nicotinamide mononucleotide adenylyltransferase/ADP-ribose pyrophosphatase; Provisional; Region: PRK05379 859656011360 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 859656011361 active site 859656011362 nucleotide binding site [chemical binding]; other site 859656011363 HIGH motif; other site 859656011364 KMSKS motif; other site 859656011365 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 859656011366 nudix motif; other site 859656011367 putative nicotinate phosphoribosyltransferase; Provisional; Region: PRK09198 859656011368 pre-B-cell colony-enhancing factor (PBEF)-like. The mammalian members of this group of nicotinate phosphoribosyltransferases (NAPRTases) were originally identified as genes whose expression is upregulated upon activation in lymphoid cells. In general; Region: PBEF_like; cd01569 859656011369 active site 859656011370 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 859656011371 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 859656011372 dimerization interface [polypeptide binding]; other site 859656011373 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 859656011374 dimer interface [polypeptide binding]; other site 859656011375 putative CheW interface [polypeptide binding]; other site 859656011376 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 859656011377 N-acetyl-D-glucosamine binding site [chemical binding]; other site 859656011378 catalytic residue [active] 859656011379 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 859656011380 Helix-turn-helix domains; Region: HTH; cl00088 859656011381 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 859656011382 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 859656011383 NADP binding site [chemical binding]; other site 859656011384 RNA polymerase sigma factor; Provisional; Region: PRK11924 859656011385 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 859656011386 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 859656011387 DNA binding residues [nucleotide binding] 859656011388 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 859656011389 FecR protein; Region: FecR; pfam04773 859656011390 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 859656011391 DNA binding residues [nucleotide binding] 859656011392 dimerization interface [polypeptide binding]; other site 859656011393 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 859656011394 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 859656011395 active site 859656011396 phosphorylation site [posttranslational modification] 859656011397 intermolecular recognition site; other site 859656011398 dimerization interface [polypeptide binding]; other site 859656011399 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 859656011400 DNA binding site [nucleotide binding] 859656011401 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 859656011402 FliP family; Region: FliP; cl00593 859656011403 type III secretion system apparatus protein YscQ/HrcQ; Region: SpaO_YscQ; TIGR02551 859656011404 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 859656011405 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 859656011406 Type III secretory pathway, component EscV [Intracellular trafficking and secretion]; Region: EscV; COG4789 859656011407 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 859656011408 type III secretion system protein HrcU; Validated; Region: PRK09108 859656011409 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 859656011410 Bacterial type III secretion protein (HrpB1_HrpK); Region: HrpB1_HrpK; pfam09613 859656011411 type III secretion protein HrpB1/HrpK; Region: HrpB1_HrpK; TIGR02561 859656011412 Bacterial type III secretion protein (HrpB2); Region: HrpB2; cl09721 859656011413 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 859656011414 type III secretion protein HrpB4; Region: HrpB4; TIGR02560 859656011415 Bacterial type III secretion protein (HrpB4); Region: HrpB4; pfam09502 859656011416 Flagellar assembly protein FliH; Region: FliH; pfam02108 859656011417 type III secretion system ATPase; Provisional; Region: PRK09099 859656011418 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 859656011419 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 859656011420 Walker A motif/ATP binding site; other site 859656011421 Walker B motif; other site 859656011422 Bacterial type III secretion protein (HrpB7); Region: HrpB7; cl09720 859656011423 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 859656011424 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 859656011425 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 859656011426 Type II secretory pathway, component PulD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulD; COG1450 859656011427 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 859656011428 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 859656011429 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 859656011430 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 859656011431 Leucine-rich repeats; other site 859656011432 Substrate binding site [chemical binding]; other site 859656011433 Leucine rich repeat; Region: LRR_8; pfam13855 859656011434 Leucine rich repeat; Region: LRR_8; pfam13855 859656011435 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 859656011436 Leucine rich repeat; Region: LRR_8; pfam13855 859656011437 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 859656011438 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859656011439 Helix-turn-helix domains; Region: HTH; cl00088 859656011440 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 859656011441 dimerization interface [polypeptide binding]; other site 859656011442 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 859656011443 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 859656011444 N-terminal plug; other site 859656011445 ligand-binding site [chemical binding]; other site 859656011446 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 859656011447 Alginate Lyase A1-III; enzymatically depolymerizes alginate, a complex copolymer of beta-D-mannuronate and alpha-L-guluronate, by cleaving the beta-(1,4) glycosidic bond; Region: AlgLyase; cl00179 859656011448 active site 859656011449 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 859656011450 Interdomain contacts; other site 859656011451 Cytokine receptor motif; other site 859656011452 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 859656011453 SET domain; Region: SET; cl02566 859656011454 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 859656011455 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 859656011456 glutamine synthetase, type I; Region: GlnA; TIGR00653 859656011457 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 859656011458 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 859656011459 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 859656011460 L-threonine dehydrogenase, extended (e) SDRs; Region: TDH_SDR_e; cd05272 859656011461 NAD binding site [chemical binding]; other site 859656011462 homodimer interface [polypeptide binding]; other site 859656011463 active site 859656011464 putative substrate binding site [chemical binding]; other site 859656011465 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 859656011466 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 859656011467 substrate-cofactor binding pocket; other site 859656011468 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859656011469 catalytic residue [active] 859656011470 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 859656011471 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 859656011472 sequence-specific DNA binding site [nucleotide binding]; other site 859656011473 salt bridge; other site 859656011474 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 859656011475 AMP-binding enzyme; Region: AMP-binding; cl15778 859656011476 Phosphopantetheine attachment site; Region: PP-binding; cl09936 859656011477 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 859656011478 NADPH bind site [chemical binding]; other site 859656011479 putative FMN binding site [chemical binding]; other site 859656011480 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 859656011481 putative FMN binding site [chemical binding]; other site 859656011482 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 859656011483 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 859656011484 active site 859656011485 Phosphopantetheine attachment site; Region: PP-binding; cl09936 859656011486 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 859656011487 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 859656011488 active site 859656011489 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 859656011490 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 859656011491 putative NADP binding site [chemical binding]; other site 859656011492 active site 859656011493 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 859656011494 S-adenosylmethionine binding site [chemical binding]; other site 859656011495 Phosphopantetheine attachment site; Region: PP-binding; cl09936 859656011496 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 859656011497 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 859656011498 active site 859656011499 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 859656011500 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 859656011501 putative NADP binding site [chemical binding]; other site 859656011502 active site 859656011503 Phosphopantetheine attachment site; Region: PP-binding; cl09936 859656011504 Phosphopantetheine attachment site; Region: PP-binding; cl09936 859656011505 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 859656011506 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 859656011507 active site 859656011508 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 859656011509 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 859656011510 putative NADP binding site [chemical binding]; other site 859656011511 active site 859656011512 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 859656011513 Phosphopantetheine attachment site; Region: PP-binding; cl09936 859656011514 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 859656011515 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 859656011516 active site 859656011517 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 859656011518 putative NADP binding site [chemical binding]; other site 859656011519 active site 859656011520 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 859656011521 S-adenosylmethionine binding site [chemical binding]; other site 859656011522 Phosphopantetheine attachment site; Region: PP-binding; cl09936 859656011523 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 859656011524 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 859656011525 active site 859656011526 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 859656011527 putative NADP binding site [chemical binding]; other site 859656011528 active site 859656011529 Phosphopantetheine attachment site; Region: PP-binding; cl09936 859656011530 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 859656011531 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 859656011532 active site 859656011533 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 859656011534 putative NADP binding site [chemical binding]; other site 859656011535 active site 859656011536 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 859656011537 S-adenosylmethionine binding site [chemical binding]; other site 859656011538 Phosphopantetheine attachment site; Region: PP-binding; cl09936 859656011539 Phosphopantetheine attachment site; Region: PP-binding; cl09936 859656011540 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 859656011541 S-adenosylmethionine binding site [chemical binding]; other site 859656011542 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 859656011543 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 859656011544 active site 859656011545 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 859656011546 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 859656011547 putative NADP binding site [chemical binding]; other site 859656011548 active site 859656011549 Phosphopantetheine attachment site; Region: PP-binding; cl09936 859656011550 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 859656011551 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 859656011552 active site 859656011553 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 859656011554 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 859656011555 putative NADP binding site [chemical binding]; other site 859656011556 active site 859656011557 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 859656011558 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 859656011559 Phosphopantetheine attachment site; Region: PP-binding; cl09936 859656011560 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 859656011561 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 859656011562 active site 859656011563 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 859656011564 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 859656011565 Phosphopantetheine attachment site; Region: PP-binding; cl09936 859656011566 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 859656011567 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 859656011568 active site 859656011569 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 859656011570 putative NADP binding site [chemical binding]; other site 859656011571 active site 859656011572 Phosphopantetheine attachment site; Region: PP-binding; cl09936 859656011573 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 859656011574 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 859656011575 active site 859656011576 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 859656011577 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 859656011578 putative NADP binding site [chemical binding]; other site 859656011579 active site 859656011580 Phosphopantetheine attachment site; Region: PP-binding; cl09936 859656011581 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 859656011582 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 859656011583 active site 859656011584 Phosphopantetheine attachment site; Region: PP-binding; cl09936 859656011585 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 859656011586 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 859656011587 active site 859656011588 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 859656011589 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 859656011590 putative NADP binding site [chemical binding]; other site 859656011591 active site 859656011592 Phosphopantetheine attachment site; Region: PP-binding; cl09936 859656011593 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 859656011594 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 859656011595 active site 859656011596 Phosphopantetheine attachment site; Region: PP-binding; cl09936 859656011597 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 859656011598 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 859656011599 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 859656011600 active site 859656011601 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 859656011602 Condensation domain; Region: Condensation; pfam00668 859656011603 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 859656011604 Nonribosomal peptide synthase; Region: NRPS; pfam08415 859656011605 Condensation domain; Region: Condensation; pfam00668 859656011606 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 859656011607 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 859656011608 Acyl transferase domain; Region: Acyl_transf_1; cl08282 859656011609 Acyl transferase domain; Region: Acyl_transf_1; cl08282 859656011610 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 859656011611 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 859656011612 FOG: CBS domain [General function prediction only]; Region: COG0517 859656011613 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_9; cd04622 859656011614 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 859656011615 Ligand Binding Site [chemical binding]; other site 859656011616 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 859656011617 Ligand Binding Site [chemical binding]; other site 859656011618 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 859656011619 Ligand Binding Site [chemical binding]; other site 859656011620 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 859656011621 BON domain; Region: BON; cl02771 859656011622 BON domain; Region: BON; cl02771 859656011623 BON domain; Region: BON; cl02771 859656011624 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 859656011625 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 859656011626 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 859656011627 BON domain; Region: BON; cl02771 859656011628 BON domain; Region: BON; cl02771 859656011629 BON domain; Region: BON; cl02771 859656011630 potential frameshift: common BLAST hit: gi|241666115|ref|YP_002984474.1| Crp/Fnr family transcriptional regulator 859656011631 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 859656011632 putative switch regulator; other site 859656011633 non-specific DNA interactions [nucleotide binding]; other site 859656011634 DNA binding site [nucleotide binding] 859656011635 sequence specific DNA binding site [nucleotide binding]; other site 859656011636 putative cAMP binding site [chemical binding]; other site 859656011637 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 859656011638 ligand binding site [chemical binding]; other site 859656011639 potential frameshift: common BLAST hit: gi|241666114|ref|YP_002984473.1| PAS/PAC sensor signal transduction histidine kinase 859656011640 PAS domain S-box; Region: sensory_box; TIGR00229 859656011641 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 859656011642 putative active site [active] 859656011643 heme pocket [chemical binding]; other site 859656011644 Histidine kinase; Region: HisKA_3; pfam07730 859656011645 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 859656011646 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 859656011647 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 859656011648 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 859656011649 active site 859656011650 phosphorylation site [posttranslational modification] 859656011651 intermolecular recognition site; other site 859656011652 dimerization interface [polypeptide binding]; other site 859656011653 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 859656011654 DNA binding residues [nucleotide binding] 859656011655 dimerization interface [polypeptide binding]; other site 859656011656 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 859656011657 Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and...; Region: ACD_LpsHSP_like; cd06471 859656011658 putative dimer interface [polypeptide binding]; other site 859656011659 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 859656011660 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 859656011661 Beta-Casp domain; Region: Beta-Casp; cl12567 859656011662 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 859656011663 phosphoribosylpyrophosphate synthetase; Provisional; Region: PRK07199 859656011664 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 859656011665 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 859656011666 active site 859656011667 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 859656011668 thymidine phosphorylase; Provisional; Region: PRK04350 859656011669 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 859656011670 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 859656011671 AAA domain; Region: AAA_33; pfam13671 859656011672 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 859656011673 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 859656011674 trimer interface [polypeptide binding]; other site 859656011675 eyelet of channel; other site 859656011676 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 859656011677 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 859656011678 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 859656011679 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 859656011680 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 859656011681 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 859656011682 L-idonate 5-dehydrogenase; Provisional; Region: PRK09880 859656011683 L-idonate 5-dehydrogenase; Region: idonate-5-DH; cd08232 859656011684 putative NAD(P) binding site [chemical binding]; other site 859656011685 catalytic Zn binding site [ion binding]; other site 859656011686 gluconate 5-dehydrogenase; Provisional; Region: PRK06124 859656011687 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 859656011688 NADP binding site [chemical binding]; other site 859656011689 homodimer interface [polypeptide binding]; other site 859656011690 active site 859656011691 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 859656011692 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 859656011693 ATP-binding site [chemical binding]; other site 859656011694 Gluconate-6-phosphate binding site [chemical binding]; other site 859656011695 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 859656011696 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656011697 hypothetical protein; Validated; Region: PRK06201 859656011698 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 859656011699 aspartate aminotransferase; Provisional; Region: PRK05764 859656011700 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 859656011701 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859656011702 homodimer interface [polypeptide binding]; other site 859656011703 catalytic residue [active] 859656011704 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 859656011705 Helix-turn-helix domains; Region: HTH; cl00088 859656011706 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 859656011707 putative dimerization interface [polypeptide binding]; other site 859656011708 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 859656011709 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 859656011710 carboxyltransferase (CT) interaction site; other site 859656011711 biotinylation site [posttranslational modification]; other site 859656011712 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK06111 859656011713 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 859656011714 ATP-grasp domain; Region: ATP-grasp_4; cl03087 859656011715 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 859656011716 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 859656011717 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 859656011718 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 859656011719 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 859656011720 putative active site [active] 859656011721 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 859656011722 classical (c) SDRs; Region: SDR_c; cd05233 859656011723 NAD(P) binding site [chemical binding]; other site 859656011724 active site 859656011725 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 859656011726 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 859656011727 dimer interface [polypeptide binding]; other site 859656011728 conserved gate region; other site 859656011729 putative PBP binding loops; other site 859656011730 ABC-ATPase subunit interface; other site 859656011731 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 859656011732 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 859656011733 dimer interface [polypeptide binding]; other site 859656011734 conserved gate region; other site 859656011735 putative PBP binding loops; other site 859656011736 ABC-ATPase subunit interface; other site 859656011737 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 859656011738 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 859656011739 Walker A/P-loop; other site 859656011740 ATP binding site [chemical binding]; other site 859656011741 Q-loop/lid; other site 859656011742 ABC transporter signature motif; other site 859656011743 Walker B; other site 859656011744 D-loop; other site 859656011745 H-loop/switch region; other site 859656011746 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 859656011747 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 859656011748 substrate binding pocket [chemical binding]; other site 859656011749 membrane-bound complex binding site; other site 859656011750 hinge residues; other site 859656011751 BON domain; Region: BON; cl02771 859656011752 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_9; cd04622 859656011753 magnesium-transporting ATPase MgtA; Provisional; Region: PRK10517 859656011754 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 859656011755 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 859656011756 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 859656011757 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 859656011758 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 859656011759 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 859656011760 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 859656011761 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 859656011762 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 859656011763 AAA domain; Region: AAA_33; pfam13671 859656011764 ATP-binding site [chemical binding]; other site 859656011765 Gluconate-6-phosphate binding site [chemical binding]; other site 859656011766 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 859656011767 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656011768 CoA-ligase; Region: Ligase_CoA; cl02894 859656011769 ATP-grasp domain; Region: ATP-grasp_4; cl03087 859656011770 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 859656011771 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 859656011772 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : enzyme 859656011773 DevC protein; Region: devC; TIGR01185 859656011774 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 859656011775 FtsX-like permease family; Region: FtsX; cl15850 859656011776 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 859656011777 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 859656011778 Walker A/P-loop; other site 859656011779 ATP binding site [chemical binding]; other site 859656011780 Q-loop/lid; other site 859656011781 ABC transporter signature motif; other site 859656011782 Walker B; other site 859656011783 D-loop; other site 859656011784 H-loop/switch region; other site 859656011785 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 859656011786 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 859656011787 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 859656011788 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 859656011789 putative FMN binding site [chemical binding]; other site 859656011790 NADPH bind site [chemical binding]; other site 859656011791 Evidence 7 : Gene remnant; Product type pe : enzyme 859656011792 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 859656011793 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 859656011794 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 859656011795 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 859656011796 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 859656011797 [4Fe-4S] binding site [ion binding]; other site 859656011798 molybdopterin cofactor binding site; other site 859656011799 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 859656011800 molybdopterin cofactor binding site; other site 859656011801 Repair protein; Region: Repair_PSII; cl01535 859656011802 Repair protein; Region: Repair_PSII; cl01535 859656011803 LemA family; Region: LemA; cl00742 859656011804 Lecithin retinol acyltransferase; Region: LRAT; pfam04970 859656011805 Chromate transporter; Region: Chromate_transp; pfam02417 859656011806 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 859656011807 Chromate transporter; Region: Chromate_transp; pfam02417 859656011808 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; cl00250 859656011809 30S subunit binding site; other site 859656011810 FtsH Extracellular; Region: FtsH_ext; pfam06480 859656011811 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 859656011812 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 859656011813 Walker A motif; other site 859656011814 ATP binding site [chemical binding]; other site 859656011815 Walker B motif; other site 859656011816 arginine finger; other site 859656011817 Peptidase family M41; Region: Peptidase_M41; pfam01434 859656011818 ribonucleotide reductase-like protein; Provisional; Region: PRK06948 859656011819 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 859656011820 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 859656011821 active site 859656011822 dimer interface [polypeptide binding]; other site 859656011823 effector binding site; other site 859656011824 Cytochrome c; Region: Cytochrom_C; cl11414 859656011825 Cytochrome c; Region: Cytochrom_C; cl11414 859656011826 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 859656011827 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 859656011828 putative substrate binding site [chemical binding]; other site 859656011829 putative ATP binding site [chemical binding]; other site 859656011830 Phage integrase protein; Region: DUF3701; pfam12482 859656011831 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 859656011832 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 859656011833 INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in...; Region: INT_SG1_C; cd01183 859656011834 Int/Topo IB signature motif; other site 859656011835 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 859656011836 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 859656011837 acetate kinase; Region: ackA; TIGR00016 859656011838 Acetokinase family; Region: Acetate_kinase; cl01029 859656011839 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07533 859656011840 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 859656011841 NAD binding site [chemical binding]; other site 859656011842 homotetramer interface [polypeptide binding]; other site 859656011843 homodimer interface [polypeptide binding]; other site 859656011844 substrate binding site [chemical binding]; other site 859656011845 active site 859656011846 hypothetical protein; Validated; Region: PRK09169 859656011847 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 859656011848 synthetase active site [active] 859656011849 NTP binding site [chemical binding]; other site 859656011850 metal binding site [ion binding]; metal-binding site 859656011851 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 859656011852 metal binding triad [ion binding]; metal-binding site 859656011853 short chain dehydrogenase; Provisional; Region: PRK06138 859656011854 classical (c) SDRs; Region: SDR_c; cd05233 859656011855 NAD(P) binding site [chemical binding]; other site 859656011856 active site 859656011857 CAAX protease self-immunity; Region: Abi; cl00558 859656011858 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 859656011859 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cd00598 859656011860 active site 859656011861 ClC sycA-like chloride channel proteins. This ClC family presents in bacteria, where it facilitates acid resistance in acidic soil. Mutation of this gene (sycA) in Rhizobium tropici CIAT899 causes serious deficiencies in nodule development, nodulation...; Region: ClC_sycA_like; cd03682 859656011862 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 859656011863 putative Cl- selectivity filter; other site 859656011864 putative pore gating glutamate residue; other site 859656011865 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 859656011866 catalytic residues [active] 859656011867 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 859656011868 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 859656011869 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 859656011870 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 859656011871 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 859656011872 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 859656011873 excinuclease ABC, A subunit; Region: uvra; TIGR00630 859656011874 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 859656011875 Walker A/P-loop; other site 859656011876 ATP binding site [chemical binding]; other site 859656011877 Q-loop/lid; other site 859656011878 excinuclease ABC, A subunit; Region: uvra; TIGR00630 859656011879 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 859656011880 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 859656011881 Rhomboid family; Region: Rhomboid; cl11446 859656011882 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 859656011883 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 859656011884 NAD(P) binding site [chemical binding]; other site 859656011885 homodimer interface [polypeptide binding]; other site 859656011886 substrate binding site [chemical binding]; other site 859656011887 active site 859656011888 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin 859656011889 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 859656011890 active site 859656011891 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 859656011892 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 859656011893 inhibitor-cofactor binding pocket; inhibition site 859656011894 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859656011895 catalytic residue [active] 859656011896 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 859656011897 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 859656011898 putative trimer interface [polypeptide binding]; other site 859656011899 putative CoA binding site [chemical binding]; other site 859656011900 Bacterial sugar transferase; Region: Bac_transf; cl00939 859656011901 putative glycosyl transferase; Provisional; Region: PRK10307 859656011902 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 859656011903 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 859656011904 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 859656011905 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 859656011906 putative NAD(P) binding site [chemical binding]; other site 859656011907 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 859656011908 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656011909 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 859656011910 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 859656011911 trimer interface [polypeptide binding]; other site 859656011912 active site 859656011913 substrate binding site [chemical binding]; other site 859656011914 CoA binding site [chemical binding]; other site 859656011915 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 859656011916 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 859656011917 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656011918 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 859656011919 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656011920 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 859656011921 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 859656011922 active site 859656011923 homodimer interface [polypeptide binding]; other site 859656011924 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 859656011925 Chain length determinant protein; Region: Wzz; cl15801 859656011926 Chain length determinant protein; Region: Wzz; cl15801 859656011927 Chain length determinant protein; Region: Wzz; cl15801 859656011928 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 859656011929 P loop; other site 859656011930 Nucleotide binding site [chemical binding]; other site 859656011931 DTAP/Switch II; other site 859656011932 Switch I; other site 859656011933 Low molecular weight phosphatase family; Region: LMWPc; cd00115 859656011934 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 859656011935 active site 859656011936 polysaccharide export protein Wza; Provisional; Region: PRK15078 859656011937 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 859656011938 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 859656011939 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 859656011940 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 859656011941 DNA binding site [nucleotide binding] 859656011942 LysE type translocator; Region: LysE; cl00565 859656011943 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 859656011944 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 859656011945 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 859656011946 Walker A/P-loop; other site 859656011947 ATP binding site [chemical binding]; other site 859656011948 Q-loop/lid; other site 859656011949 ABC transporter signature motif; other site 859656011950 Walker B; other site 859656011951 D-loop; other site 859656011952 H-loop/switch region; other site 859656011953 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 859656011954 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 859656011955 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 859656011956 Walker A/P-loop; other site 859656011957 ATP binding site [chemical binding]; other site 859656011958 Q-loop/lid; other site 859656011959 ABC transporter signature motif; other site 859656011960 Walker B; other site 859656011961 D-loop; other site 859656011962 H-loop/switch region; other site 859656011963 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 859656011964 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 859656011965 N-terminal plug; other site 859656011966 ligand-binding site [chemical binding]; other site 859656011967 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 859656011968 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 859656011969 Phosphopantetheine attachment site; Region: PP-binding; cl09936 859656011970 Condensation domain; Region: Condensation; pfam00668 859656011971 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 859656011972 Nonribosomal peptide synthase; Region: NRPS; pfam08415 859656011973 AMP-binding enzyme; Region: AMP-binding; cl15778 859656011974 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 859656011975 peptide synthase; Provisional; Region: PRK12467 859656011976 Phosphopantetheine attachment site; Region: PP-binding; cl09936 859656011977 Condensation domain; Region: Condensation; pfam00668 859656011978 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 859656011979 Nonribosomal peptide synthase; Region: NRPS; pfam08415 859656011980 siderophore transporter, RhtX/FptX family; Region: sider_RhtX_FptX; TIGR02718 859656011981 muropeptide transporter; Validated; Region: ampG; PRK11010 859656011982 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 859656011983 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 859656011984 active site 859656011985 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 859656011986 Acyl transferase domain; Region: Acyl_transf_1; cl08282 859656011987 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 859656011988 ketoreductase (KR) and fatty acid synthase (FAS), complex (x) SDRs; Region: KR_FAS_SDR_x; cd05274 859656011989 NADP binding site [chemical binding]; other site 859656011990 active site 859656011991 Condensation domain; Region: Condensation; pfam00668 859656011992 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 859656011993 Nonribosomal peptide synthase; Region: NRPS; pfam08415 859656011994 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 859656011995 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 859656011996 Phosphopantetheine attachment site; Region: PP-binding; cl09936 859656011997 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 859656011998 thiazolinyl imide reductase; Region: thiaz-red; TIGR01761 859656011999 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656012000 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 859656012001 Peptide arylation enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntE; COG1021 859656012002 AMP-binding enzyme; Region: AMP-binding; cl15778 859656012003 AMP-binding enzyme; Region: AMP-binding; cl15778 859656012004 salicylate synthase; Region: salicyl_syn; TIGR03494 859656012005 chorismate binding enzyme; Region: Chorismate_bind; cl10555 859656012006 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 859656012007 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_6; cd06315 859656012008 putative ligand binding site [chemical binding]; other site 859656012009 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 859656012010 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 859656012011 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 859656012012 dimer interface [polypeptide binding]; other site 859656012013 putative CheW interface [polypeptide binding]; other site 859656012014 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 859656012015 Fatty acid desaturase; Region: FA_desaturase; pfam00487 859656012016 putative di-iron ligands [ion binding]; other site 859656012017 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 859656012018 Vta1 like; Region: DUF605; pfam04652 859656012019 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 859656012020 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 859656012021 tetramerization interface [polypeptide binding]; other site 859656012022 NAD(P) binding site [chemical binding]; other site 859656012023 catalytic residues [active] 859656012024 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : enzyme 859656012025 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : enzyme 859656012026 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 859656012027 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 859656012028 Walker A/P-loop; other site 859656012029 ATP binding site [chemical binding]; other site 859656012030 Q-loop/lid; other site 859656012031 ABC transporter signature motif; other site 859656012032 Walker B; other site 859656012033 D-loop; other site 859656012034 H-loop/switch region; other site 859656012035 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 859656012036 Walker A/P-loop; other site 859656012037 ATP binding site [chemical binding]; other site 859656012038 Q-loop/lid; other site 859656012039 ABC transporter signature motif; other site 859656012040 Walker B; other site 859656012041 D-loop; other site 859656012042 H-loop/switch region; other site 859656012043 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 859656012044 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 859656012045 dimer interface [polypeptide binding]; other site 859656012046 conserved gate region; other site 859656012047 ABC-ATPase subunit interface; other site 859656012048 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 859656012049 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 859656012050 dimer interface [polypeptide binding]; other site 859656012051 conserved gate region; other site 859656012052 putative PBP binding loops; other site 859656012053 ABC-ATPase subunit interface; other site 859656012054 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 859656012055 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 859656012056 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656012057 FAD dependent oxidoreductase; Region: DAO; pfam01266 859656012058 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 859656012059 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 859656012060 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 859656012061 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 859656012062 NAD(P) binding site [chemical binding]; other site 859656012063 catalytic residues [active] 859656012064 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 859656012065 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 859656012066 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 859656012067 Coenzyme A binding pocket [chemical binding]; other site 859656012068 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 859656012069 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656012070 hypothetical protein; Provisional; Region: PRK05965 859656012071 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 859656012072 inhibitor-cofactor binding pocket; inhibition site 859656012073 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859656012074 catalytic residue [active] 859656012075 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 859656012076 Helix-turn-helix domains; Region: HTH; cl00088 859656012077 AsnC family; Region: AsnC_trans_reg; pfam01037 859656012078 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 859656012079 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 859656012080 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 859656012081 FAD dependent oxidoreductase; Region: DAO; pfam01266 859656012082 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656012083 PAAR motif; Region: PAAR_motif; cl15808 859656012084 Protein of unknown function (DUF3274); Region: DUF3274; pfam11678 859656012085 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 859656012086 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 859656012087 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 859656012088 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 859656012089 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 859656012090 Cupin domain; Region: Cupin_2; cl09118 859656012091 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 859656012092 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 859656012093 metal binding site [ion binding]; metal-binding site 859656012094 putative dimer interface [polypeptide binding]; other site 859656012095 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 859656012096 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 859656012097 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 859656012098 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 859656012099 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 859656012100 Uncharacterized conserved protein [Function unknown]; Region: COG2308 859656012101 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; pfam04174 859656012102 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; cl00980 859656012103 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 859656012104 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 859656012105 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 859656012106 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 859656012107 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4307 859656012108 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; pfam10005 859656012109 DNA-binding protein H-NS [General function prediction only]; Region: Hns; COG2916 859656012110 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 859656012111 Predicted integral membrane protein (DUF2282); Region: DUF2282; cl02366 859656012112 Protein of unknown function (DUF692); Region: DUF692; cl01263 859656012113 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 859656012114 DoxX; Region: DoxX; cl00976 859656012115 periplasmic protein; Provisional; Region: PRK10568 859656012116 BON domain; Region: BON; cl02771 859656012117 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 859656012118 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 859656012119 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 859656012120 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 859656012121 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 859656012122 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 859656012123 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 859656012124 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 859656012125 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 859656012126 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 859656012127 putative molybdopterin cofactor binding site [chemical binding]; other site 859656012128 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 859656012129 putative molybdopterin cofactor binding site; other site 859656012130 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 859656012131 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 859656012132 PAS fold; Region: PAS_4; pfam08448 859656012133 PAS fold; Region: PAS_4; pfam08448 859656012134 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 859656012135 putative active site [active] 859656012136 heme pocket [chemical binding]; other site 859656012137 K+ potassium transporter; Region: K_trans; cl15781 859656012138 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 859656012139 DNA-binding site [nucleotide binding]; DNA binding site 859656012140 RNA-binding motif; other site 859656012141 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 859656012142 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 859656012143 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 859656012144 tetrameric interface [polypeptide binding]; other site 859656012145 NAD binding site [chemical binding]; other site 859656012146 catalytic residues [active] 859656012147 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 859656012148 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 859656012149 inhibitor-cofactor binding pocket; inhibition site 859656012150 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859656012151 catalytic residue [active] 859656012152 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 859656012153 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 859656012154 DNA-binding site [nucleotide binding]; DNA binding site 859656012155 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 859656012156 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859656012157 homodimer interface [polypeptide binding]; other site 859656012158 catalytic residue [active] 859656012159 Acetoacetate decarboxylase (ADC); Region: ADC; cl01919 859656012160 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK13394 859656012161 classical (c) SDRs; Region: SDR_c; cd05233 859656012162 NAD(P) binding site [chemical binding]; other site 859656012163 active site 859656012164 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 859656012165 nucleophile elbow; other site 859656012166 Patatin phospholipase; Region: DUF3734; pfam12536 859656012167 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 859656012168 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656012169 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 859656012170 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 859656012171 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 859656012172 N-terminal plug; other site 859656012173 ligand-binding site [chemical binding]; other site 859656012174 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 859656012175 putative substrate binding site [chemical binding]; other site 859656012176 putative ATP binding site [chemical binding]; other site 859656012177 Pathogenicity factor; Region: AvrE; pfam11725 859656012178 PTS_IIA, PTS system, glucose/sucrose 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_glc; cl00162 859656012179 HPr interaction site; other site 859656012180 glycerol kinase (GK) interaction site [polypeptide binding]; other site 859656012181 active site 859656012182 phosphorylation site [posttranslational modification] 859656012183 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 859656012184 dimerization domain swap beta strand [polypeptide binding]; other site 859656012185 regulatory protein interface [polypeptide binding]; other site 859656012186 active site 859656012187 regulatory phosphorylation site [posttranslational modification]; other site 859656012188 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 859656012189 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 859656012190 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 859656012191 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 859656012192 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; cl01155 859656012193 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 859656012194 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 859656012195 substrate binding [chemical binding]; other site 859656012196 active site 859656012197 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 859656012198 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 859656012199 PTS_IIB, PTS system, glucose/sucrose specific IIB 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_IIB_glc; cd00212 859656012200 active site turn [active] 859656012201 phosphorylation site [posttranslational modification] 859656012202 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 859656012203 Transcriptional regulators [Transcription]; Region: PurR; COG1609 859656012204 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 859656012205 DNA binding site [nucleotide binding] 859656012206 domain linker motif; other site 859656012207 Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_TreR_like; cd01542 859656012208 dimerization interface [polypeptide binding]; other site 859656012209 ligand binding site [chemical binding]; other site 859656012210 AsnC family; Region: AsnC_trans_reg; pfam01037 859656012211 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 859656012212 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656012213 NAD(P) binding site [chemical binding]; other site 859656012214 active site 859656012215 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 859656012216 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 859656012217 DNA binding residues [nucleotide binding] 859656012218 dimer interface [polypeptide binding]; other site 859656012219 metal binding site [ion binding]; metal-binding site 859656012220 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 859656012221 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 859656012222 Transposase, Mutator family; Region: Transposase_mut; pfam00872 859656012223 MULE transposase domain; Region: MULE; pfam10551 859656012224 Xylella fastidiosa protein of unknown function (DUF769); Region: DUF769; pfam05590 859656012225 Domain of unknown function (DUF1910); Region: DUF1910; pfam08928 859656012226 Domain of unknown function (DUF1911); Region: DUF1911; pfam08929 859656012227 Protein of unknown function, DUF596; Region: DUF596; cl10492 859656012228 haemagglutination activity domain; Region: Haemagg_act; cl05436 859656012229 AIDA autotransporter-like protein ShdA; Provisional; Region: PRK15319 859656012230 adhesin HecA family 20-residue repeat (two copies); Region: fil_hemag_20aa; TIGR01731 859656012231 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 859656012232 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 859656012233 RTX toxin acyltransferase family; Region: HlyC; cl01131 859656012234 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 859656012235 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 859656012236 Surface antigen; Region: Bac_surface_Ag; cl03097 859656012237 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 859656012238 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 859656012239 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656012240 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 859656012241 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 859656012242 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 859656012243 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 859656012244 Walker A motif; other site 859656012245 ATP binding site [chemical binding]; other site 859656012246 Walker B motif; other site 859656012247 arginine finger; other site 859656012248 Helix-turn-helix domains; Region: HTH; cl00088 859656012249 Predicted membrane protein [Function unknown]; Region: COG4655 859656012250 Protein of unknown function (DUF3613); Region: DUF3613; pfam12266 859656012251 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 859656012252 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 859656012253 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 859656012254 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 859656012255 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 859656012256 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 859656012257 ATP binding site [chemical binding]; other site 859656012258 Walker A motif; other site 859656012259 hexamer interface [polypeptide binding]; other site 859656012260 Walker B motif; other site 859656012261 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 859656012262 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 859656012263 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 859656012264 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 859656012265 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 859656012266 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 859656012267 Flp/Fap pilin component; Region: Flp_Fap; cl01585 859656012268 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 859656012269 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 859656012270 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 859656012271 DNA binding residues [nucleotide binding] 859656012272 dimerization interface [polypeptide binding]; other site 859656012273 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 859656012274 metal binding site [ion binding]; metal-binding site 859656012275 active site 859656012276 I-site; other site 859656012277 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 859656012278 H-NS histone family; Region: Histone_HNS; pfam00816 859656012279 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 859656012280 Cache domain; Region: Cache_2; cl07034 859656012281 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 859656012282 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 859656012283 dimer interface [polypeptide binding]; other site 859656012284 putative CheW interface [polypeptide binding]; other site 859656012285 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 859656012286 PAS fold; Region: PAS_3; pfam08447 859656012287 putative active site [active] 859656012288 heme pocket [chemical binding]; other site 859656012289 UDP-glucose 4-epimerase; Region: PLN02240 859656012290 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 859656012291 NAD binding site [chemical binding]; other site 859656012292 homodimer interface [polypeptide binding]; other site 859656012293 active site 859656012294 substrate binding site [chemical binding]; other site 859656012295 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 859656012296 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 859656012297 active site 859656012298 Int/Topo IB signature motif; other site 859656012299 DNA binding site [nucleotide binding] 859656012300 Trehalose-6-phosphatase [Carbohydrate transport and metabolism]; Region: OtsB; COG1877 859656012301 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 859656012302 active site 859656012303 motif I; other site 859656012304 motif II; other site 859656012305 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 859656012306 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 859656012307 active site 859656012308 homotetramer interface [polypeptide binding]; other site 859656012309 Helix-turn-helix domains; Region: HTH; cl00088 859656012310 OsmC-like protein; Region: OsmC; cl00767 859656012311 Evidence 7 : Gene remnant 859656012312 Ubiquitin-like proteins; Region: UBQ; cl00155 859656012313 Uncharacterized conserved protein [Function unknown]; Region: COG1656; cl09136 859656012314 Protein of unknown function DUF82; Region: DUF82; pfam01927 859656012315 Transglycosylase SLT domain; Region: SLT_2; pfam13406 859656012316 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 859656012317 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 859656012318 transcriptional regulator; Provisional; Region: PRK10632 859656012319 Helix-turn-helix domains; Region: HTH; cl00088 859656012320 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 859656012321 putative effector binding pocket; other site 859656012322 putative dimerization interface [polypeptide binding]; other site 859656012323 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 859656012324 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 859656012325 substrate binding pocket [chemical binding]; other site 859656012326 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 859656012327 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 859656012328 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 859656012329 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 859656012330 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 859656012331 LysE type translocator; Region: LysE; cl00565 859656012332 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 859656012333 Helix-turn-helix domains; Region: HTH; cl00088 859656012334 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 859656012335 dimerization interface [polypeptide binding]; other site 859656012336 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 859656012337 Asn-Pro-Ala signature motifs; other site 859656012338 Low molecular weight phosphatase family; Region: LMWPc; cd00115 859656012339 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 859656012340 active site 859656012341 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_20; cd07254 859656012342 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 859656012343 putative metal binding site [ion binding]; other site 859656012344 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 859656012345 dimerization interface [polypeptide binding]; other site 859656012346 putative DNA binding site [nucleotide binding]; other site 859656012347 putative Zn2+ binding site [ion binding]; other site 859656012348 Domain of unknown function (DUF4303); Region: DUF4303; pfam14136 859656012349 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 859656012350 binding surface 859656012351 TPR motif; other site 859656012352 PAAR motif; Region: PAAR_motif; cl15808 859656012353 RHS Repeat; Region: RHS_repeat; cl11982 859656012354 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 859656012355 RHS Repeat; Region: RHS_repeat; cl11982 859656012356 RHS Repeat; Region: RHS_repeat; cl11982 859656012357 RHS Repeat; Region: RHS_repeat; cl11982 859656012358 RHS Repeat; Region: RHS_repeat; cl11982 859656012359 RHS Repeat; Region: RHS_repeat; cl11982 859656012360 RHS Repeat; Region: RHS_repeat; cl11982 859656012361 RHS Repeat; Region: RHS_repeat; cl11982 859656012362 RHS Repeat; Region: RHS_repeat; cl11982 859656012363 RHS protein; Region: RHS; pfam03527 859656012364 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 859656012365 Domain of unknown function (DUF1795); Region: DUF1795; cl02256 859656012366 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 859656012367 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 859656012368 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 859656012369 hypothetical protein; Provisional; Region: PRK09946 859656012370 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 859656012371 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 859656012372 substrate binding pocket [chemical binding]; other site 859656012373 membrane-bound complex binding site; other site 859656012374 hinge residues; other site 859656012375 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 859656012376 DNA binding residues [nucleotide binding] 859656012377 dimerization interface [polypeptide binding]; other site 859656012378 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 859656012379 DNA binding residues [nucleotide binding] 859656012380 dimerization interface [polypeptide binding]; other site 859656012381 Glutaminase; Region: Glutaminase; cl00907 859656012382 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 859656012383 putative PBP binding loops; other site 859656012384 dimer interface [polypeptide binding]; other site 859656012385 ABC-ATPase subunit interface; other site 859656012386 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 859656012387 Walker A/P-loop; other site 859656012388 ATP binding site [chemical binding]; other site 859656012389 ABC transporter; Region: ABC_tran; pfam00005 859656012390 Q-loop/lid; other site 859656012391 ABC transporter signature motif; other site 859656012392 Walker B; other site 859656012393 D-loop; other site 859656012394 H-loop/switch region; other site 859656012395 Helix-turn-helix domains; Region: HTH; cl00088 859656012396 TOBE domain; Region: TOBE_2; cl01440 859656012397 PAS domain S-box; Region: sensory_box; TIGR00229 859656012398 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 859656012399 PAS domain S-box; Region: sensory_box; TIGR00229 859656012400 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 859656012401 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 859656012402 metal binding site [ion binding]; metal-binding site 859656012403 active site 859656012404 I-site; other site 859656012405 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 859656012406 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 859656012407 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 859656012408 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 859656012409 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 859656012410 Ligand Binding Site [chemical binding]; other site 859656012411 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 859656012412 dimer interface [polypeptide binding]; other site 859656012413 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 859656012414 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 859656012415 active site 859656012416 phosphorylation site [posttranslational modification] 859656012417 intermolecular recognition site; other site 859656012418 dimerization interface [polypeptide binding]; other site 859656012419 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 859656012420 DNA binding site [nucleotide binding] 859656012421 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 859656012422 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 859656012423 dimerization interface [polypeptide binding]; other site 859656012424 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 859656012425 dimer interface [polypeptide binding]; other site 859656012426 phosphorylation site [posttranslational modification] 859656012427 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 859656012428 ATP binding site [chemical binding]; other site 859656012429 Mg2+ binding site [ion binding]; other site 859656012430 G-X-G motif; other site 859656012431 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4727 859656012432 Integral membrane protein TerC family; Region: TerC; cl10468 859656012433 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 859656012434 Transporter associated domain; Region: CorC_HlyC; cl08393 859656012435 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 859656012436 Uncharacterized protein potentially involved in peptidoglycan biosynthesis [Cell envelope biogenesis, outer membrane]; Region: COG5479 859656012437 LGFP repeat; Region: LGFP; pfam08310 859656012438 LGFP repeat; Region: LGFP; pfam08310 859656012439 Phospholipase C [Cell envelope biogenesis, outer membrane]; Region: PlcC; COG3511 859656012440 Phosphoesterase family; Region: Phosphoesterase; cl15450 859656012441 Dodecin; Region: Dodecin; cl01328 859656012442 Protein of unknown function (DUF3175); Region: DUF3175; pfam11373 859656012443 H+ Antiporter protein; Region: 2A0121; TIGR00900 859656012444 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 859656012445 putative substrate translocation pore; other site 859656012446 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 859656012447 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 859656012448 putative active site [active] 859656012449 heme pocket [chemical binding]; other site 859656012450 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 859656012451 dimer interface [polypeptide binding]; other site 859656012452 phosphorylation site [posttranslational modification] 859656012453 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 859656012454 ATP binding site [chemical binding]; other site 859656012455 Mg2+ binding site [ion binding]; other site 859656012456 G-X-G motif; other site 859656012457 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 859656012458 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 859656012459 active site 859656012460 phosphorylation site [posttranslational modification] 859656012461 intermolecular recognition site; other site 859656012462 dimerization interface [polypeptide binding]; other site 859656012463 Bacterial Ig-like domain (group 3); Region: Big_3_3; pfam13750 859656012464 Bacterial Ig-like domain (group 3); Region: Big_3_3; pfam13750 859656012465 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 859656012466 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 859656012467 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 859656012468 Bacterial Ig-like domain (group 3); Region: Big_3_3; pfam13750 859656012469 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 859656012470 Bacterial Ig-like domain (group 3); Region: Big_3_3; pfam13750 859656012471 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 859656012472 Bacterial Ig-like domain (group 3); Region: Big_3_3; pfam13750 859656012473 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 859656012474 Bacterial Ig-like domain (group 3); Region: Big_3_3; pfam13750 859656012475 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 859656012476 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 859656012477 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 859656012478 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 859656012479 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 859656012480 ABC-type bacteriocin exporters. Many non-lantibiotic bacteriocins of lactic acid bacteria are produced as precursors which have N-terminal leader peptides that share similarities in amino acid sequence and contain a conserved processing site of two...; Region: ABCC_bacteriocin_exporters; cd03245 859656012481 Walker A/P-loop; other site 859656012482 ATP binding site [chemical binding]; other site 859656012483 Q-loop/lid; other site 859656012484 ABC transporter signature motif; other site 859656012485 Walker B; other site 859656012486 D-loop; other site 859656012487 H-loop/switch region; other site 859656012488 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 859656012489 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 859656012490 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 859656012491 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 859656012492 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 859656012493 substrate binding site [chemical binding]; other site 859656012494 ATP binding site [chemical binding]; other site 859656012495 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 859656012496 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bacterial Cryptic D-Serine Dehydratase; Region: PLPDE_III_cryptic_DSD; cd06818 859656012497 dimer interface [polypeptide binding]; other site 859656012498 active site 859656012499 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 859656012500 substrate binding site [chemical binding]; other site 859656012501 catalytic residue [active] 859656012502 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 859656012503 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 859656012504 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 859656012505 putative active site [active] 859656012506 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 859656012507 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 859656012508 active site 859656012509 putative substrate binding pocket [chemical binding]; other site 859656012510 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 859656012511 D-aminoacylase, C-terminal region; Region: D-aminoacyl_C; pfam07908 859656012512 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 859656012513 homotrimer interaction site [polypeptide binding]; other site 859656012514 putative active site [active] 859656012515 GntP family permease; Region: GntP_permease; pfam02447 859656012516 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 859656012517 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 859656012518 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 859656012519 active site 859656012520 intersubunit interface [polypeptide binding]; other site 859656012521 catalytic residue [active] 859656012522 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 859656012523 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 859656012524 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 859656012525 DNA binding residues [nucleotide binding] 859656012526 dimerization interface [polypeptide binding]; other site 859656012527 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 859656012528 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 859656012529 dimerization interface [polypeptide binding]; other site 859656012530 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 859656012531 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 859656012532 dimer interface [polypeptide binding]; other site 859656012533 phosphorylation site [posttranslational modification] 859656012534 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 859656012535 ATP binding site [chemical binding]; other site 859656012536 Mg2+ binding site [ion binding]; other site 859656012537 G-X-G motif; other site 859656012538 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 859656012539 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 859656012540 active site 859656012541 phosphorylation site [posttranslational modification] 859656012542 intermolecular recognition site; other site 859656012543 dimerization interface [polypeptide binding]; other site 859656012544 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 859656012545 DNA binding site [nucleotide binding] 859656012546 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 859656012547 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 859656012548 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 859656012549 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 859656012550 Protein export membrane protein; Region: SecD_SecF; cl14618 859656012551 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 859656012552 Protein export membrane protein; Region: SecD_SecF; cl14618 859656012553 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 859656012554 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 859656012555 PAS domain S-box; Region: sensory_box; TIGR00229 859656012556 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 859656012557 putative active site [active] 859656012558 heme pocket [chemical binding]; other site 859656012559 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 859656012560 PAS fold; Region: PAS_3; pfam08447 859656012561 putative active site [active] 859656012562 heme pocket [chemical binding]; other site 859656012563 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 859656012564 metal binding site [ion binding]; metal-binding site 859656012565 active site 859656012566 I-site; other site 859656012567 Flagellar protein YcgR; Region: YcgR_2; pfam12945 859656012568 PilZ domain; Region: PilZ; cl01260 859656012569 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 859656012570 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 859656012571 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 859656012572 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 859656012573 metal binding site [ion binding]; metal-binding site 859656012574 active site 859656012575 I-site; other site 859656012576 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 859656012577 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 859656012578 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 859656012579 dimerization interface [polypeptide binding]; other site 859656012580 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 859656012581 dimer interface [polypeptide binding]; other site 859656012582 putative CheW interface [polypeptide binding]; other site 859656012583 Entericidin EcnA/B family; Region: Entericidin; cl02322 859656012584 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 859656012585 putative active site [active] 859656012586 catalytic site [active] 859656012587 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 859656012588 PLD-like domain; Region: PLDc_2; pfam13091 859656012589 putative active site [active] 859656012590 catalytic site [active] 859656012591 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 859656012592 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 859656012593 putative active site [active] 859656012594 catalytic site [active] 859656012595 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 859656012596 putative active site [active] 859656012597 catalytic site [active] 859656012598 Protein of unknown function (DUF3184); Region: DUF3184; pfam11380 859656012599 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 859656012600 MatE; Region: MatE; cl10513 859656012601 MatE; Region: MatE; cl10513 859656012602 Uncharacterized protein conserved in bacteria (DUF2239); Region: DUF2239; cl01461 859656012603 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 859656012604 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 859656012605 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 859656012606 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 859656012607 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 859656012608 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 859656012609 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 859656012610 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 859656012611 [4Fe-4S] binding site [ion binding]; other site 859656012612 molybdopterin cofactor binding site; other site 859656012613 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 859656012614 molybdopterin cofactor binding site; other site 859656012615 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 859656012616 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 859656012617 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 859656012618 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 859656012619 nitrite reductase subunit NirD; Provisional; Region: PRK14989 859656012620 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 859656012621 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 859656012622 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 859656012623 nitrate transmembrane transporter; Provisional; Region: PLN00028 859656012624 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 859656012625 putative substrate translocation pore; other site 859656012626 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 859656012627 PAS domain; Region: PAS_9; pfam13426 859656012628 putative active site [active] 859656012629 heme pocket [chemical binding]; other site 859656012630 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 859656012631 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 859656012632 dimer interface [polypeptide binding]; other site 859656012633 putative CheW interface [polypeptide binding]; other site 859656012634 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 859656012635 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 859656012636 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 859656012637 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : enzyme 859656012638 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 859656012639 active site 859656012640 catalytic site [active] 859656012641 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 859656012642 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 859656012643 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 859656012644 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 859656012645 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 859656012646 dimer interface [polypeptide binding]; other site 859656012647 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 859656012648 metal binding site [ion binding]; metal-binding site 859656012649 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 859656012650 aspartate aminotransferase; Provisional; Region: PRK05764 859656012651 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 859656012652 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859656012653 homodimer interface [polypeptide binding]; other site 859656012654 catalytic residue [active] 859656012655 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 859656012656 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 859656012657 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 859656012658 Helix-turn-helix domains; Region: HTH; cl00088 859656012659 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 859656012660 dimerization interface [polypeptide binding]; other site 859656012661 substrate binding pocket [chemical binding]; other site 859656012662 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : enzyme 859656012663 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; cd00641 859656012664 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 859656012665 dimerization interface [polypeptide binding]; other site 859656012666 active site 859656012667 DoxX; Region: DoxX; cl00976 859656012668 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 859656012669 Helix-turn-helix domains; Region: HTH; cl00088 859656012670 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 859656012671 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 859656012672 inhibitor site; inhibition site 859656012673 active site 859656012674 dimer interface [polypeptide binding]; other site 859656012675 catalytic residue [active] 859656012676 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 859656012677 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 859656012678 putative active site [active] 859656012679 metal binding site [ion binding]; metal-binding site 859656012680 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 859656012681 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 859656012682 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 859656012683 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 859656012684 Na binding site [ion binding]; other site 859656012685 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; cl01922 859656012686 BNR repeat-like domain; Region: BNR_2; pfam13088 859656012687 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 859656012688 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 859656012689 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 859656012690 classical (c) SDRs; Region: SDR_c; cd05233 859656012691 NAD(P) binding site [chemical binding]; other site 859656012692 active site 859656012693 Predicted dehydrogenase [General function prediction only]; Region: COG5322 859656012694 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656012695 NAD(P) binding pocket [chemical binding]; other site 859656012696 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 859656012697 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 859656012698 inhibitor-cofactor binding pocket; inhibition site 859656012699 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859656012700 catalytic residue [active] 859656012701 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 859656012702 Predicted transcriptional regulators [Transcription]; Region: COG1510 859656012703 Helix-turn-helix domains; Region: HTH; cl00088 859656012704 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 859656012705 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 859656012706 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 859656012707 2-dehydropantoate 2-reductase; Provisional; Region: PRK08229 859656012708 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656012709 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 859656012710 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 859656012711 active site 859656012712 catalytic triad [active] 859656012713 oxyanion hole [active] 859656012714 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 859656012715 homotrimer interaction site [polypeptide binding]; other site 859656012716 putative active site [active] 859656012717 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 859656012718 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 859656012719 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 859656012720 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 859656012721 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 859656012722 active site 859656012723 metal binding site [ion binding]; metal-binding site 859656012724 PGDYG protein; Region: PGDYG; pfam14083 859656012725 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 859656012726 non-specific DNA binding site [nucleotide binding]; other site 859656012727 salt bridge; other site 859656012728 sequence-specific DNA binding site [nucleotide binding]; other site 859656012729 HipA N-terminal domain; Region: Couple_hipA; cl11853 859656012730 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 859656012731 HipA-like N-terminal domain; Region: HipA_N; pfam07805 859656012732 HipA-like C-terminal domain; Region: HipA_C; pfam07804 859656012733 Evidence 4 : Homologs of previously reported genes of unknown function 859656012734 Evidence 4 : Homologs of previously reported genes of unknown function 859656012735 Major Facilitator Superfamily; Region: MFS_1; pfam07690 859656012736 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 859656012737 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 859656012738 LysR family transcriptional regulator; Provisional; Region: PRK14997 859656012739 Helix-turn-helix domains; Region: HTH; cl00088 859656012740 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_4; cd08473 859656012741 putative effector binding pocket; other site 859656012742 putative dimerization interface [polypeptide binding]; other site 859656012743 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 859656012744 Evidence 4 : Homologs of previously reported genes of unknown function 859656012745 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 859656012746 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 859656012747 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656012748 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 859656012749 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 859656012750 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 859656012751 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 859656012752 AMP-binding enzyme; Region: AMP-binding; cl15778 859656012753 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 859656012754 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859656012755 Helix-turn-helix domains; Region: HTH; cl00088 859656012756 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 859656012757 putative dimerization interface [polypeptide binding]; other site 859656012758 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 859656012759 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 859656012760 BNR repeat-like domain; Region: BNR_2; pfam13088 859656012761 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : transporter 859656012762 Conserved TM helix; Region: TM_helix; pfam05552 859656012763 Conserved TM helix; Region: TM_helix; pfam05552 859656012764 Uncharacterized BCR, YnfA/UPF0060 family; Region: UPF0060; cl00757 859656012765 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 859656012766 Family description; Region: UvrD_C_2; cl15862 859656012767 putative transporter; Provisional; Region: PRK10504 859656012768 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 859656012769 putative substrate translocation pore; other site 859656012770 fumarate hydratase; Reviewed; Region: fumC; PRK00485 859656012771 Class II fumarases; Region: Fumarase_classII; cd01362 859656012772 active site 859656012773 tetramer interface [polypeptide binding]; other site 859656012774 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 859656012775 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 859656012776 legume lectins; Region: lectin_L-type; cl14058 859656012777 carbohydrate binding site [chemical binding]; other site 859656012778 metal binding site [ion binding]; metal-binding site 859656012779 homotetramer interaction site [polypeptide binding]; other site 859656012780 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 859656012781 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 859656012782 PilX N-terminal; Region: PilX_N; pfam14341 859656012783 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 859656012784 Tfp pilus assembly protein PilV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilV; COG4967 859656012785 Type II transport protein GspH; Region: GspH; pfam12019 859656012786 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 859656012787 Domain of unknown function (DUF4178); Region: DUF4178; pfam13785 859656012788 Domain of unknown function (DUF4178); Region: DUF4178; pfam13785 859656012789 Membrane protease subunit, stomatin/prohibitin family [Amino acid transport and metabolism]; Region: COG4260 859656012790 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. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_5; cd03408 859656012791 Short C-terminal domain; Region: SHOCT; cl01373 859656012792 Predicted membrane protein [Function unknown]; Region: COG3766 859656012793 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 859656012794 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 859656012795 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 859656012796 putative ligand binding site [chemical binding]; other site 859656012797 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 859656012798 TM-ABC transporter signature motif; other site 859656012799 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 859656012800 TM-ABC transporter signature motif; other site 859656012801 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 859656012802 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 859656012803 Walker A/P-loop; other site 859656012804 ATP binding site [chemical binding]; other site 859656012805 Q-loop/lid; other site 859656012806 ABC transporter signature motif; other site 859656012807 Walker B; other site 859656012808 D-loop; other site 859656012809 H-loop/switch region; other site 859656012810 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 859656012811 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 859656012812 Walker A/P-loop; other site 859656012813 ATP binding site [chemical binding]; other site 859656012814 Q-loop/lid; other site 859656012815 ABC transporter signature motif; other site 859656012816 Walker B; other site 859656012817 D-loop; other site 859656012818 H-loop/switch region; other site 859656012819 spermidine synthase; Provisional; Region: PRK03612 859656012820 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 859656012821 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656012822 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 859656012823 Protein of unknown function (DUF1304); Region: DUF1304; cl01533 859656012824 hypothetical protein; Validated; Region: PRK09169 859656012825 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 859656012826 metal binding triad [ion binding]; metal-binding site 859656012827 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 859656012828 mercuric reductase; Validated; Region: PRK06370 859656012829 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 859656012830 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 859656012831 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 859656012832 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 859656012833 PhnA protein; Region: PhnA; pfam03831 859656012834 Putative NodB-like catalytic domain of uncharacterized proteins found in bacteria; Region: CE4_COG5298; cd10923 859656012835 Uncharacterized protein conserved in bacteria (DUF2334); Region: DUF2334; pfam10096 859656012836 NodB motif; other site 859656012837 putative active site [active] 859656012838 putative catalytic site [active] 859656012839 putative Zn binding site [ion binding]; other site 859656012840 YGGT family; Region: YGGT; cl00508 859656012841 Predicted periplasmic lipoprotein (DUF2279); Region: DUF2279; cl11574 859656012842 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 859656012843 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 859656012844 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 859656012845 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 859656012846 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 859656012847 DNA binding residues [nucleotide binding] 859656012848 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 859656012849 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK06995 859656012850 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK06995 859656012851 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 859656012852 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 859656012853 FHIPEP family; Region: FHIPEP; pfam00771 859656012854 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 859656012855 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 859656012856 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 859656012857 Helix-turn-helix domains; Region: HTH; cl00088 859656012858 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 859656012859 Major Facilitator Superfamily; Region: MFS_1; pfam07690 859656012860 putative substrate translocation pore; other site 859656012861 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 859656012862 active site 859656012863 trimer interface [polypeptide binding]; other site 859656012864 shikimate 5-dehydrogenase; Reviewed; Region: PRK12549 859656012865 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 859656012866 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 859656012867 shikimate binding site; other site 859656012868 NAD(P) binding site [chemical binding]; other site 859656012869 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 859656012870 trimer interface [polypeptide binding]; other site 859656012871 eyelet of channel; other site 859656012872 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 859656012873 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 859656012874 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 859656012875 dimer interface [polypeptide binding]; other site 859656012876 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 859656012877 active site 859656012878 Fe binding site [ion binding]; other site 859656012879 YopJ Serine/Threonine acetyltransferase; Region: YopJ; cl07849 859656012880 YopJ Serine/Threonine acetyltransferase; Region: YopJ; cl07849 859656012881 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 859656012882 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 859656012883 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 859656012884 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 859656012885 active site 859656012886 phosphorylation site [posttranslational modification] 859656012887 intermolecular recognition site; other site 859656012888 dimerization interface [polypeptide binding]; other site 859656012889 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 859656012890 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 859656012891 active site 859656012892 phosphorylation site [posttranslational modification] 859656012893 intermolecular recognition site; other site 859656012894 dimerization interface [polypeptide binding]; other site 859656012895 CheB methylesterase; Region: CheB_methylest; pfam01339 859656012896 CheD chemotactic sensory transduction; Region: CheD; cl00810 859656012897 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 859656012898 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 859656012899 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 859656012900 Evidence 4 : Homologs of previously reported genes of unknown function 859656012901 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 859656012902 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 859656012903 dimer interface [polypeptide binding]; other site 859656012904 ligand binding site [chemical binding]; other site 859656012905 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 859656012906 dimerization interface [polypeptide binding]; other site 859656012907 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 859656012908 dimer interface [polypeptide binding]; other site 859656012909 putative CheW interface [polypeptide binding]; other site 859656012910 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 859656012911 putative CheA interaction surface; other site 859656012912 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 859656012913 putative binding surface; other site 859656012914 active site 859656012915 CheY binding; Region: CheY-binding; pfam09078 859656012916 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 859656012917 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 859656012918 ATP binding site [chemical binding]; other site 859656012919 Mg2+ binding site [ion binding]; other site 859656012920 G-X-G motif; other site 859656012921 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 859656012922 Response regulator receiver domain; Region: Response_reg; pfam00072 859656012923 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 859656012924 active site 859656012925 phosphorylation site [posttranslational modification] 859656012926 intermolecular recognition site; other site 859656012927 dimerization interface [polypeptide binding]; other site 859656012928 flagellar motor protein MotB; Validated; Region: motB; PRK09041 859656012929 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 859656012930 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 859656012931 ligand binding site [chemical binding]; other site 859656012932 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 859656012933 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 859656012934 Flagellar transcriptional activator (FlhC); Region: FlhC; cl05036 859656012935 Flagellar transcriptional activator (FlhD); Region: FlhD; cl05012 859656012936 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 859656012937 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 859656012938 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 859656012939 putative ligand binding site [chemical binding]; other site 859656012940 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 859656012941 CoA-transferase family III; Region: CoA_transf_3; pfam02515 859656012942 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 859656012943 dimer interface [polypeptide binding]; other site 859656012944 phosphorylation site [posttranslational modification] 859656012945 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 859656012946 ATP binding site [chemical binding]; other site 859656012947 Mg2+ binding site [ion binding]; other site 859656012948 G-X-G motif; other site 859656012949 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 859656012950 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 859656012951 active site 859656012952 phosphorylation site [posttranslational modification] 859656012953 intermolecular recognition site; other site 859656012954 dimerization interface [polypeptide binding]; other site 859656012955 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 859656012956 DNA binding site [nucleotide binding] 859656012957 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 859656012958 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 859656012959 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 859656012960 Arginase family; Region: Arginase; cl00306 859656012961 Cytochrome c [Energy production and conversion]; Region: COG3258 859656012962 Cytochrome c; Region: Cytochrom_C; cl11414 859656012963 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 859656012964 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 859656012965 dimer interface [polypeptide binding]; other site 859656012966 phosphorylation site [posttranslational modification] 859656012967 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 859656012968 ATP binding site [chemical binding]; other site 859656012969 Mg2+ binding site [ion binding]; other site 859656012970 G-X-G motif; other site 859656012971 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 859656012972 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 859656012973 active site 859656012974 phosphorylation site [posttranslational modification] 859656012975 intermolecular recognition site; other site 859656012976 dimerization interface [polypeptide binding]; other site 859656012977 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 859656012978 DNA binding site [nucleotide binding] 859656012979 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 859656012980 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 859656012981 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 859656012982 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 859656012983 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 859656012984 Protein export membrane protein; Region: SecD_SecF; cl14618 859656012985 tyramine oxidase; Provisional; Region: tynA; PRK14696 859656012986 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 859656012987 Copper amine oxidase, N2 domain; Region: Cu_amine_oxidN2; pfam02727 859656012988 Copper amine oxidase, N3 domain; Region: Cu_amine_oxidN3; pfam02728 859656012989 Copper amine oxidase, enzyme domain; Region: Cu_amine_oxid; pfam01179 859656012990 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 859656012991 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 859656012992 active site 859656012993 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 859656012994 active site 859656012995 tetramer interface [polypeptide binding]; other site 859656012996 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 859656012997 Helix-turn-helix domains; Region: HTH; cl00088 859656012998 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 859656012999 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 859656013000 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 859656013001 amidase catalytic site [active] 859656013002 Zn binding residues [ion binding]; other site 859656013003 substrate binding site [chemical binding]; other site 859656013004 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 859656013005 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 859656013006 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 859656013007 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 859656013008 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 859656013009 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 859656013010 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 859656013011 Walker A/P-loop; other site 859656013012 ATP binding site [chemical binding]; other site 859656013013 Q-loop/lid; other site 859656013014 ABC transporter signature motif; other site 859656013015 Walker B; other site 859656013016 D-loop; other site 859656013017 H-loop/switch region; other site 859656013018 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 859656013019 FtsX-like permease family; Region: FtsX; cl15850 859656013020 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 859656013021 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : enzyme 859656013022 Evidence 4 : Homologs of previously reported genes of unknown function 859656013023 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 859656013024 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 859656013025 Domain of unknown function (DUF4393); Region: DUF4393; pfam14337 859656013026 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 859656013027 active site 859656013028 Int/Topo IB signature motif; other site 859656013029 DDE superfamily endonuclease; Region: DDE_4; cl15789 859656013030 Evidence 4 : Homologs of previously reported genes of unknown function 859656013031 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 11136451, 9696756 859656013032 Evidence 4 : Homologs of previously reported genes of unknown function 859656013033 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 859656013034 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 859656013035 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 859656013036 Helix-turn-helix domains; Region: HTH; cl00088 859656013037 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859656013038 Helix-turn-helix domains; Region: HTH; cl00088 859656013039 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 859656013040 putative effector binding pocket; other site 859656013041 putative dimerization interface [polypeptide binding]; other site 859656013042 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 859656013043 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 859656013044 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 859656013045 active site 859656013046 catalytic tetrad [active] 859656013047 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 859656013048 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 859656013049 putative NAD(P) binding site [chemical binding]; other site 859656013050 putative substrate binding site [chemical binding]; other site 859656013051 catalytic Zn binding site [ion binding]; other site 859656013052 structural Zn binding site [ion binding]; other site 859656013053 dimer interface [polypeptide binding]; other site 859656013054 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 859656013055 active site 859656013056 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 859656013057 Helix-turn-helix domains; Region: HTH; cl00088 859656013058 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 859656013059 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 859656013060 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 859656013061 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 859656013062 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 859656013063 HlyD family secretion protein; Region: HlyD; pfam00529 859656013064 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 859656013065 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 859656013066 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 859656013067 triacylglycerol lipase; Region: PLN02872 859656013068 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 859656013069 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 859656013070 AAA domain; Region: AAA_21; pfam13304 859656013071 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 859656013072 AAA domain; Region: AAA_21; pfam13304 859656013073 Walker A/P-loop; other site 859656013074 ATP binding site [chemical binding]; other site 859656013075 Evidence 2b : Function of strongly homologous gene; Product type e : enzyme 859656013076 DDE superfamily endonuclease; Region: DDE_4; cl15789 859656013077 Evidence 4 : Homologs of previously reported genes of unknown function 859656013078 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859656013079 Helix-turn-helix domains; Region: HTH; cl00088 859656013080 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_9; cd08479 859656013081 putative effector binding pocket; other site 859656013082 putative dimerization interface [polypeptide binding]; other site 859656013083 tartrate dehydrogenase; Provisional; Region: PRK08194 859656013084 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 859656013085 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 859656013086 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 859656013087 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 859656013088 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 859656013089 MOFRL family; Region: MOFRL; pfam05161 859656013090 pyruvate kinase; Provisional; Region: PRK06247 859656013091 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 859656013092 domain interfaces; other site 859656013093 active site 859656013094 Protein of unknown function (DUF419); Region: DUF419; cl15265 859656013095 single-stranded binding protein UL29; Provisional; Region: PHA03362 859656013096 Uncharacterized conserved protein [Function unknown]; Region: COG1262 859656013097 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 859656013098 PAAR motif; Region: PAAR_motif; cl15808 859656013099 RHS Repeat; Region: RHS_repeat; cl11982 859656013100 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 859656013101 RHS Repeat; Region: RHS_repeat; cl11982 859656013102 RHS Repeat; Region: RHS_repeat; cl11982 859656013103 RHS Repeat; Region: RHS_repeat; cl11982 859656013104 RHS Repeat; Region: RHS_repeat; cl11982 859656013105 RHS Repeat; Region: RHS_repeat; cl11982 859656013106 RHS Repeat; Region: RHS_repeat; cl11982 859656013107 RHS protein; Region: RHS; pfam03527 859656013108 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 859656013109 A nuclease family of the HNH/ENDO VII superfamily with conserved AHH; Region: AHH; pfam14412 859656013110 Domain of unknown function (DUF1795); Region: DUF1795; cl02256 859656013111 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 859656013112 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 859656013113 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 859656013114 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 859656013115 3-hydroxyisobutyryl-CoA hydrolase-like protein; Region: PLN02851 859656013116 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 859656013117 Helix-turn-helix domains; Region: HTH; cl00088 859656013118 AsnC family; Region: AsnC_trans_reg; pfam01037 859656013119 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : enzyme 859656013120 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 859656013121 homotrimer interaction site [polypeptide binding]; other site 859656013122 putative active site [active] 859656013123 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : enzyme 859656013124 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656013125 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 859656013126 Transposase, Mutator family; Region: Transposase_mut; pfam00872 859656013127 MULE transposase domain; Region: MULE; pfam10551 859656013128 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 859656013129 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 859656013130 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 859656013131 DNA-binding site [nucleotide binding]; DNA binding site 859656013132 RNA-binding motif; other site 859656013133 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 859656013134 dimer interface [polypeptide binding]; other site 859656013135 phosphorylation site [posttranslational modification] 859656013136 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 859656013137 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 859656013138 S-adenosylmethionine binding site [chemical binding]; other site 859656013139 Protein of unknown function (DUF2939); Region: DUF2939; pfam11159 859656013140 Evidence 4 : Homologs of previously reported genes of unknown function 859656013141 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 859656013142 putative effector binding pocket; other site 859656013143 dimerization interface [polypeptide binding]; other site 859656013144 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 859656013145 intersubunit interface [polypeptide binding]; other site 859656013146 active site 859656013147 Zn2+ binding site [ion binding]; other site 859656013148 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 859656013149 D-galactonate transporter; Region: 2A0114; TIGR00893 859656013150 putative substrate translocation pore; other site 859656013151 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]; Region: CDC6; COG1474 859656013152 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 859656013153 EamA-like transporter family; Region: EamA; cl01037 859656013154 EamA-like transporter family; Region: EamA; cl01037 859656013155 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859656013156 Helix-turn-helix domains; Region: HTH; cl00088 859656013157 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 859656013158 dimerization interface [polypeptide binding]; other site 859656013159 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 859656013160 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 859656013161 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 859656013162 putative N-terminal domain interface [polypeptide binding]; other site 859656013163 putative dimer interface [polypeptide binding]; other site 859656013164 putative substrate binding pocket (H-site) [chemical binding]; other site 859656013165 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 859656013166 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 859656013167 homodimer interface [polypeptide binding]; other site 859656013168 substrate-cofactor binding pocket; other site 859656013169 catalytic residue [active] 859656013170 Protein of unknown function (DUF3348); Region: DUF3348; pfam11828 859656013171 Domain of unknown function (DUF802); Region: DUF802; pfam05650 859656013172 Domain of unknown function (DUF802); Region: DUF802; pfam05650 859656013173 hypothetical protein; Provisional; Region: PRK09040 859656013174 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 859656013175 ligand binding site [chemical binding]; other site 859656013176 Protein of unknown function (DUF2894); Region: DUF2894; pfam11445 859656013177 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 859656013178 Biotin carboxylase [Lipid metabolism]; Region: AccC; COG0439 859656013179 ATP-grasp domain; Region: ATP-grasp_4; cl03087 859656013180 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 859656013181 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 859656013182 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; cl01053 859656013183 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 859656013184 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 859656013185 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin 859656013186 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 859656013187 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 859656013188 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 859656013189 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 859656013190 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 859656013191 putative catalytic residue [active] 859656013192 NnrS protein; Region: NnrS; cl01258 859656013193 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 859656013194 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 859656013195 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 859656013196 putative acyl-acceptor binding pocket; other site 859656013197 transcriptional regulator NarL; Provisional; Region: PRK10651 859656013198 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 859656013199 active site 859656013200 phosphorylation site [posttranslational modification] 859656013201 intermolecular recognition site; other site 859656013202 dimerization interface [polypeptide binding]; other site 859656013203 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 859656013204 DNA binding residues [nucleotide binding] 859656013205 dimerization interface [polypeptide binding]; other site 859656013206 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 859656013207 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 859656013208 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 859656013209 dimerization interface [polypeptide binding]; other site 859656013210 GAF domain; Region: GAF; cl15785 859656013211 Histidine kinase; Region: HisKA_3; pfam07730 859656013212 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 859656013213 ATP binding site [chemical binding]; other site 859656013214 Mg2+ binding site [ion binding]; other site 859656013215 G-X-G motif; other site 859656013216 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 859656013217 Walker A motif; other site 859656013218 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 859656013219 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 859656013220 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 859656013221 4Fe-4S binding domain; Region: Fer4; cl02805 859656013222 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 859656013223 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 859656013224 [4Fe-4S] binding site [ion binding]; other site 859656013225 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 859656013226 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 859656013227 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 859656013228 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 859656013229 molybdopterin cofactor binding site; other site 859656013230 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 859656013231 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 859656013232 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 859656013233 putative substrate translocation pore; other site 859656013234 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 859656013235 ATP cone domain; Region: ATP-cone; pfam03477 859656013236 Class III ribonucleotide reductase; Region: RNR_III; cd01675 859656013237 effector binding site; other site 859656013238 active site 859656013239 Zn binding site [ion binding]; other site 859656013240 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 859656013241 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 859656013242 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 859656013243 FeS/SAM binding site; other site 859656013244 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 859656013245 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 859656013246 ligand binding site [chemical binding]; other site 859656013247 flexible hinge region; other site 859656013248 Helix-turn-helix domains; Region: HTH; cl00088 859656013249 DGC domain; Region: DGC; cl01742 859656013250 SCP-2 sterol transfer family; Region: SCP2; cl01225 859656013251 Peptidase family U32; Region: Peptidase_U32; cl03113 859656013252 Peptidase family U32; Region: Peptidase_U32; cl03113 859656013253 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 859656013254 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 859656013255 DNA-binding site [nucleotide binding]; DNA binding site 859656013256 UTRA domain; Region: UTRA; cl01230 859656013257 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 859656013258 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 859656013259 Walker A/P-loop; other site 859656013260 ATP binding site [chemical binding]; other site 859656013261 Q-loop/lid; other site 859656013262 ABC transporter signature motif; other site 859656013263 Walker B; other site 859656013264 D-loop; other site 859656013265 H-loop/switch region; other site 859656013266 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 859656013267 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 859656013268 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 859656013269 NMT1-like family; Region: NMT1_2; cl15260 859656013270 Protein of unknown function, DUF488; Region: DUF488; cl01246 859656013271 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 859656013272 metal binding site [ion binding]; metal-binding site 859656013273 active site 859656013274 I-site; other site 859656013275 transcriptional regulator EpsA; Region: EpsA; TIGR03020 859656013276 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 859656013277 DNA binding residues [nucleotide binding] 859656013278 dimerization interface [polypeptide binding]; other site 859656013279 Predicted membrane protein [Function unknown]; Region: COG4125 859656013280 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 859656013281 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 859656013282 Helix-turn-helix domains; Region: HTH; cl00088 859656013283 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859656013284 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 859656013285 dimerization interface [polypeptide binding]; other site 859656013286 Flagellar protein YcgR; Region: YcgR_2; pfam12945 859656013287 PilZ domain; Region: PilZ; cl01260 859656013288 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 859656013289 homotrimer interaction site [polypeptide binding]; other site 859656013290 putative active site [active] 859656013291 serine racemase; Region: PLN02970 859656013292 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 859656013293 tetramer interface [polypeptide binding]; other site 859656013294 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859656013295 catalytic residue [active] 859656013296 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 859656013297 YheO-like PAS domain; Region: PAS_6; pfam08348 859656013298 Helix-turn-helix domains; Region: HTH; cl00088 859656013299 Protein of unknown function (DUF3761); Region: DUF3761; pfam12587 859656013300 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 859656013301 Sulfate transporter family; Region: Sulfate_transp; cl15842 859656013302 Sulfate transporter family; Region: Sulfate_transp; cl15842 859656013303 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 859656013304 Uncharacterized conserved protein [Function unknown]; Region: COG4278 859656013305 Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]; Region: VirJ; COG3946 859656013306 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 859656013307 Predicted integral membrane protein [Function unknown]; Region: COG0392 859656013308 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 859656013309 Uncharacterized conserved protein [Function unknown]; Region: COG2898 859656013310 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 859656013311 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 859656013312 metal binding site [ion binding]; metal-binding site 859656013313 active site 859656013314 I-site; other site 859656013315 Rhomboid family; Region: Rhomboid; cl11446 859656013316 Immunoglobulin domain; Region: Ig; cl11960 859656013317 Protein of unknown function (DUF3500); Region: DUF3500; pfam12006 859656013318 HupE / UreJ protein; Region: HupE_UreJ; cl01011 859656013319 Putative catalytic domain, repeat 2, of uncharacterized hypothetical proteins similar to Nuc, an endonuclease from Salmonella typhimurium; Region: PLDc_Nuc_like_unchar1_2; cd09173 859656013320 putative active site [active] 859656013321 catalytic site [active] 859656013322 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 859656013323 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; cl14733 859656013324 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 859656013325 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 859656013326 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 859656013327 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 859656013328 Integrase core domain; Region: rve; cl01316 859656013329 Domain of unknown function (DUF4285); Region: DUF4285; pfam14113 859656013330 PAAR motif; Region: PAAR_motif; cl15808 859656013331 Spore Coat Protein U domain; Region: SCPU; cl02253 859656013332 Spore Coat Protein U domain; Region: SCPU; cl02253 859656013333 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 859656013334 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 859656013335 PapC C-terminal domain; Region: PapC_C; pfam13953 859656013336 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 859656013337 Spore Coat Protein U domain; Region: SCPU; cl02253 859656013338 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656013339 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 859656013340 heme binding pocket [chemical binding]; other site 859656013341 Domain of unknown function (DUF1993); Region: DUF1993; cl01567 859656013342 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 859656013343 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 859656013344 DNA binding residues [nucleotide binding] 859656013345 dimerization interface [polypeptide binding]; other site 859656013346 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 859656013347 thiamine phosphate binding site [chemical binding]; other site 859656013348 active site 859656013349 pyrophosphate binding site [ion binding]; other site 859656013350 shikimate transporter; Provisional; Region: PRK09952 859656013351 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 859656013352 putative substrate translocation pore; other site 859656013353 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 859656013354 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 859656013355 putative active site [active] 859656013356 metal binding site [ion binding]; metal-binding site 859656013357 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 859656013358 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 859656013359 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 859656013360 protein binding site [polypeptide binding]; other site 859656013361 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 859656013362 protein binding site [polypeptide binding]; other site 859656013363 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 859656013364 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 859656013365 dimer interface [polypeptide binding]; other site 859656013366 phosphorylation site [posttranslational modification] 859656013367 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 859656013368 ATP binding site [chemical binding]; other site 859656013369 Mg2+ binding site [ion binding]; other site 859656013370 G-X-G motif; other site 859656013371 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 859656013372 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 859656013373 active site 859656013374 phosphorylation site [posttranslational modification] 859656013375 intermolecular recognition site; other site 859656013376 dimerization interface [polypeptide binding]; other site 859656013377 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 859656013378 DNA binding site [nucleotide binding] 859656013379 NolX protein; Region: NolX; pfam05819 859656013380 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 859656013381 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 859656013382 putative active site [active] 859656013383 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 859656013384 glucokinase, proteobacterial type; Region: glk; TIGR00749 859656013385 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 859656013386 putative active site [active] 859656013387 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 859656013388 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 859656013389 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 859656013390 Dehydratase family; Region: ILVD_EDD; cl00340 859656013391 6-phosphogluconate dehydratase; Region: edd; TIGR01196 859656013392 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 859656013393 Ligand Binding Site [chemical binding]; other site 859656013394 Protein of unknown function (DUF3293); Region: DUF3293; pfam11697 859656013395 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 859656013396 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 859656013397 Cytochrome c; Region: Cytochrom_C; cl11414 859656013398 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 859656013399 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 859656013400 D-pathway; other site 859656013401 Low-spin heme binding site [chemical binding]; other site 859656013402 Putative water exit pathway; other site 859656013403 Binuclear center (active site) [active] 859656013404 K-pathway; other site 859656013405 Putative proton exit pathway; other site 859656013406 Heme-copper oxidase subunit III. 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. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 859656013407 Subunit I/III interface [polypeptide binding]; other site 859656013408 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 859656013409 Subunit I/III interface [polypeptide binding]; other site 859656013410 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 859656013411 NolX protein; Region: NolX; pfam05819 859656013412 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859656013413 Helix-turn-helix domains; Region: HTH; cl00088 859656013414 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 859656013415 dimerization interface [polypeptide binding]; other site 859656013416 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 859656013417 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 859656013418 putative substrate translocation pore; other site 859656013419 Uncharacterized conserved protein [Function unknown]; Region: COG5476 859656013420 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 859656013421 MlrC C-terminus; Region: MlrC_C; pfam07171 859656013422 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859656013423 Helix-turn-helix domains; Region: HTH; cl00088 859656013424 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 859656013425 dimerization interface [polypeptide binding]; other site 859656013426 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 859656013427 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 859656013428 substrate binding pocket [chemical binding]; other site 859656013429 membrane-bound complex binding site; other site 859656013430 hinge residues; other site 859656013431 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 859656013432 dimer interface [polypeptide binding]; other site 859656013433 conserved gate region; other site 859656013434 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 859656013435 ABC-ATPase subunit interface; other site 859656013436 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 859656013437 dimer interface [polypeptide binding]; other site 859656013438 conserved gate region; other site 859656013439 putative PBP binding loops; other site 859656013440 ABC-ATPase subunit interface; other site 859656013441 Arginase family; Region: Arginase; cl00306 859656013442 transcriptional regulator EpsA; Region: EpsA; TIGR03020 859656013443 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 859656013444 DNA binding residues [nucleotide binding] 859656013445 dimerization interface [polypeptide binding]; other site 859656013446 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 859656013447 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 859656013448 tetramer interface [polypeptide binding]; other site 859656013449 heme binding pocket [chemical binding]; other site 859656013450 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 859656013451 hypothetical protein; Provisional; Region: PRK05939 859656013452 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 859656013453 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 859656013454 catalytic residue [active] 859656013455 FAD dependent oxidoreductase; Region: DAO; pfam01266 859656013456 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656013457 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 859656013458 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 859656013459 tetrameric interface [polypeptide binding]; other site 859656013460 NAD binding site [chemical binding]; other site 859656013461 catalytic residues [active] 859656013462 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 859656013463 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 859656013464 dimerization interface [polypeptide binding]; other site 859656013465 ligand binding site [chemical binding]; other site 859656013466 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 859656013467 Helix-turn-helix domains; Region: HTH; cl00088 859656013468 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 859656013469 dimerization interface [polypeptide binding]; other site 859656013470 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 859656013471 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 859656013472 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 859656013473 E3 interaction surface; other site 859656013474 lipoyl attachment site [posttranslational modification]; other site 859656013475 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 859656013476 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 859656013477 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 859656013478 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 859656013479 active site 859656013480 metal binding site [ion binding]; metal-binding site 859656013481 ShET2 enterotoxin, N-terminal region; Region: Toxin_15; pfam07906 859656013482 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 859656013483 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 859656013484 tetramerization interface [polypeptide binding]; other site 859656013485 NAD(P) binding site [chemical binding]; other site 859656013486 catalytic residues [active] 859656013487 tartrate dehydrogenase; Provisional; Region: PRK08194 859656013488 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 859656013489 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 859656013490 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 859656013491 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 859656013492 D-galactonate transporter; Region: 2A0114; TIGR00893 859656013493 putative substrate translocation pore; other site 859656013494 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 859656013495 Altronate dehydratase [Carbohydrate transport and metabolism]; Region: UxaA; COG2721 859656013496 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 859656013497 Transcriptional regulators [Transcription]; Region: PurR; COG1609 859656013498 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 859656013499 DNA binding site [nucleotide binding] 859656013500 domain linker motif; other site 859656013501 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 859656013502 putative dimerization interface [polypeptide binding]; other site 859656013503 putative ligand binding site [chemical binding]; other site 859656013504 Cupin domain; Region: Cupin_2; cl09118 859656013505 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 859656013506 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 859656013507 active site 859656013508 HIGH motif; other site 859656013509 nucleotide binding site [chemical binding]; other site 859656013510 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 859656013511 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 859656013512 active site 859656013513 KMSKS motif; other site 859656013514 Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IucD; COG3486 859656013515 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656013516 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 859656013517 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 859656013518 Coenzyme A binding pocket [chemical binding]; other site 859656013519 putative transposase OrfB; Reviewed; Region: PHA02517 859656013520 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type e : enzyme 859656013521 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 859656013522 Protein of unknown function (DUF1641); Region: DUF1641; cl01025 859656013523 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 859656013524 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 859656013525 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859656013526 homodimer interface [polypeptide binding]; other site 859656013527 catalytic residue [active] 859656013528 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 859656013529 Helix-turn-helix domains; Region: HTH; cl00088 859656013530 AsnC family; Region: AsnC_trans_reg; pfam01037 859656013531 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 859656013532 CoenzymeA binding site [chemical binding]; other site 859656013533 subunit interaction site [polypeptide binding]; other site 859656013534 PHB binding site; other site 859656013535 Transposase, Mutator family; Region: Transposase_mut; pfam00872 859656013536 MULE transposase domain; Region: MULE; pfam10551 859656013537 cyanate hydratase; Validated; Region: PRK02866 859656013538 Cyanase C-terminal domain. Cyanase (Cyanate lyase) is responsible for the hydrolysis of cyanate. It catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. This allows organisms that possess the enzyme to overcome the...; Region: Cyanase_C; cd00559 859656013539 oligomer interface [polypeptide binding]; other site 859656013540 active site 859656013541 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 859656013542 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 859656013543 D-xylose transporter subunit XylF; Provisional; Region: xylF; PRK10355 859656013544 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 859656013545 putative ligand binding site [chemical binding]; other site 859656013546 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 859656013547 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 859656013548 Walker A/P-loop; other site 859656013549 ATP binding site [chemical binding]; other site 859656013550 Q-loop/lid; other site 859656013551 ABC transporter signature motif; other site 859656013552 Walker B; other site 859656013553 D-loop; other site 859656013554 H-loop/switch region; other site 859656013555 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 859656013556 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 859656013557 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 859656013558 TM-ABC transporter signature motif; other site 859656013559 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 859656013560 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656013561 NAD(P) binding site [chemical binding]; other site 859656013562 active site 859656013563 Transcriptional regulators [Transcription]; Region: PurR; COG1609 859656013564 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 859656013565 DNA binding site [nucleotide binding] 859656013566 domain linker motif; other site 859656013567 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 859656013568 putative dimerization interface [polypeptide binding]; other site 859656013569 putative ligand binding site [chemical binding]; other site 859656013570 EamA-like transporter family; Region: EamA; cl01037 859656013571 EamA-like transporter family; Region: EamA; cl01037 859656013572 Helix-turn-helix domain; Region: HTH_18; pfam12833 859656013573 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 859656013574 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 859656013575 classical (c) SDR, subgroup 7; Region: SDR_c7; cd05354 859656013576 putative NAD(P) binding site [chemical binding]; other site 859656013577 active site 859656013578 Transcriptional regulators [Transcription]; Region: MarR; COG1846 859656013579 Helix-turn-helix domains; Region: HTH; cl00088 859656013580 transcriptional regulator; Provisional; Region: PRK10632 859656013581 Helix-turn-helix domains; Region: HTH; cl00088 859656013582 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 859656013583 putative effector binding pocket; other site 859656013584 dimerization interface [polypeptide binding]; other site 859656013585 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859656013586 NAD(P) binding site [chemical binding]; other site 859656013587 active site 859656013588 Outer membrane efflux protein; Region: OEP; pfam02321 859656013589 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 859656013590 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 859656013591 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 859656013592 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 859656013593 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 859656013594 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 859656013595 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 859656013596 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 859656013597 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 859656013598 Helix-turn-helix domains; Region: HTH; cl00088 859656013599 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 859656013600 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 859656013601 DJ-1 family protein; Region: not_thiJ; TIGR01383 859656013602 conserved cys residue [active] 859656013603 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 859656013604 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 859656013605 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 859656013606 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 859656013607 conserved cys residue [active] 859656013608 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 859656013609 non-specific DNA binding site [nucleotide binding]; other site 859656013610 salt bridge; other site 859656013611 sequence-specific DNA binding site [nucleotide binding]; other site 859656013612 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 859656013613 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 859656013614 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 859656013615 TPR motif; other site 859656013616 binding surface 859656013617 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 859656013618 Putative zinc-finger; Region: zf-HC2; cl15806 859656013619 RNA polymerase sigma factor; Provisional; Region: PRK12533 859656013620 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 859656013621 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 859656013622 active site 859656013623 metal binding site [ion binding]; metal-binding site 859656013624 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 859656013625 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : enzyme 859656013626 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 859656013627 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 859656013628 G1 box; other site 859656013629 putative GEF interaction site [polypeptide binding]; other site 859656013630 GTP/Mg2+ binding site [chemical binding]; other site 859656013631 Switch I region; other site 859656013632 G2 box; other site 859656013633 G3 box; other site 859656013634 Switch II region; other site 859656013635 G4 box; other site 859656013636 G5 box; other site 859656013637 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 859656013638 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 859656013639 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 859656013640 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 859656013641 active site 859656013642 phosphorylation site [posttranslational modification] 859656013643 intermolecular recognition site; other site 859656013644 dimerization interface [polypeptide binding]; other site 859656013645 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 859656013646 Walker A motif; other site 859656013647 ATP binding site [chemical binding]; other site 859656013648 Walker B motif; other site 859656013649 arginine finger; other site 859656013650 Helix-turn-helix domains; Region: HTH; cl00088 859656013651 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 859656013652 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 859656013653 Walker A motif; other site 859656013654 ATP binding site [chemical binding]; other site 859656013655 Walker B motif; other site 859656013656 arginine finger; other site 859656013657 Helix-turn-helix domains; Region: HTH; cl00088 859656013658 RNA polymerase factor sigma-54; Provisional; Region: PRK12469 859656013659 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 859656013660 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 859656013661 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 859656013662 Predicted deacetylase [General function prediction only]; Region: COG3233 859656013663 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u10; cd11374 859656013664 putative active site [active] 859656013665 putative Zn binding site [ion binding]; other site 859656013666 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 859656013667 PAS fold; Region: PAS_3; pfam08447 859656013668 putative active site [active] 859656013669 heme pocket [chemical binding]; other site 859656013670 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 859656013671 PAS domain; Region: PAS_9; pfam13426 859656013672 putative active site [active] 859656013673 heme pocket [chemical binding]; other site 859656013674 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 859656013675 PAS fold; Region: PAS_4; pfam08448 859656013676 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 859656013677 dimer interface [polypeptide binding]; other site 859656013678 phosphorylation site [posttranslational modification] 859656013679 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 859656013680 ATP binding site [chemical binding]; other site 859656013681 Mg2+ binding site [ion binding]; other site 859656013682 G-X-G motif; other site 859656013683 Response regulator receiver domain; Region: Response_reg; pfam00072 859656013684 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 859656013685 active site 859656013686 phosphorylation site [posttranslational modification] 859656013687 intermolecular recognition site; other site 859656013688 dimerization interface [polypeptide binding]; other site 859656013689 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 859656013690 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 859656013691 active site 859656013692 Int/Topo IB signature motif; other site 859656013693 DNA binding site [nucleotide binding] 859656013694 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252