-- dump date 20120504_155254 -- class Genbank::misc_feature -- table misc_feature_note -- id note 342610000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 342610000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 342610000003 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 342610000004 Walker A motif; other site 342610000005 ATP binding site [chemical binding]; other site 342610000006 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610000007 Walker B motif; other site 342610000008 arginine finger; other site 342610000009 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 342610000010 DnaA box-binding interface [nucleotide binding]; other site 342610000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 342610000012 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 342610000013 putative DNA binding surface [nucleotide binding]; other site 342610000014 dimer interface [polypeptide binding]; other site 342610000015 beta-clamp/clamp loader binding surface; other site 342610000016 beta-clamp/translesion DNA polymerase binding surface; other site 342610000017 recombination protein F; Reviewed; Region: recF; PRK00064 342610000018 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610000019 Walker A/P-loop; other site 342610000020 ATP binding site [chemical binding]; other site 342610000021 Q-loop/lid; other site 342610000022 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610000023 ABC transporter signature motif; other site 342610000024 Walker B; other site 342610000025 D-loop; other site 342610000026 H-loop/switch region; other site 342610000027 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 342610000028 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 342610000029 Mg2+ binding site [ion binding]; other site 342610000030 G-X-G motif; other site 342610000031 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 342610000032 anchoring element; other site 342610000033 dimer interface [polypeptide binding]; other site 342610000034 ATP binding site [chemical binding]; other site 342610000035 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 342610000036 active site 342610000037 putative metal-binding site [ion binding]; other site 342610000038 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 342610000039 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 342610000040 aspartate racemase; Region: asp_race; TIGR00035 342610000041 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 342610000042 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610000043 metal binding site [ion binding]; metal-binding site 342610000044 active site 342610000045 I-site; other site 342610000046 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 342610000047 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 342610000048 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 342610000049 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 342610000050 dimer interface [polypeptide binding]; other site 342610000051 motif 1; other site 342610000052 active site 342610000053 motif 2; other site 342610000054 motif 3; other site 342610000055 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 342610000056 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 342610000057 Der GTPase activator (YihI); Region: YihI; cl01172 342610000058 Cytochrome c; Region: Cytochrom_C; cl11414 342610000059 Cytochrome c; Region: Cytochrom_C; cl11414 342610000060 Predicted GTPase [General function prediction only]; Region: COG0218 342610000061 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 342610000062 G1 box; other site 342610000063 GTP/Mg2+ binding site [chemical binding]; other site 342610000064 Switch I region; other site 342610000065 G2 box; other site 342610000066 G3 box; other site 342610000067 Switch II region; other site 342610000068 G4 box; other site 342610000069 G5 box; other site 342610000070 DNA polymerase I; Provisional; Region: PRK05755 342610000071 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 342610000072 active site 342610000073 metal binding site 1 [ion binding]; metal-binding site 342610000074 putative 5' ssDNA interaction site; other site 342610000075 metal binding site 3; metal-binding site 342610000076 metal binding site 2 [ion binding]; metal-binding site 342610000077 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 342610000078 putative DNA binding site [nucleotide binding]; other site 342610000079 putative metal binding site [ion binding]; other site 342610000080 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 342610000081 active site 342610000082 catalytic site [active] 342610000083 substrate binding site [chemical binding]; other site 342610000084 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 342610000085 active site 342610000086 DNA binding site [nucleotide binding] 342610000087 catalytic site [active] 342610000088 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 342610000089 Cation transport protein; Region: TrkH; cl10514 342610000090 conjugal transfer surface exclusion protein TraT; Provisional; Region: PRK13731 342610000091 Enterobacterial TraT complement resistance protein; Region: TraT; pfam05818 342610000092 Protein of unknown function VcgC/VcgE (DUF2780); Region: DUF2780; pfam11075 342610000093 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 342610000094 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610000095 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 342610000096 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610000097 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 342610000098 16S rRNA methyltransferase B; Provisional; Region: PRK10901 342610000099 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 342610000100 putative RNA binding site [nucleotide binding]; other site 342610000101 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 342610000102 S-adenosylmethionine binding site [chemical binding]; other site 342610000103 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 342610000104 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 342610000105 putative active site [active] 342610000106 substrate binding site [chemical binding]; other site 342610000107 putative cosubstrate binding site; other site 342610000108 catalytic site [active] 342610000109 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 342610000110 substrate binding site [chemical binding]; other site 342610000111 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 342610000112 active site 342610000113 catalytic residues [active] 342610000114 metal binding site [ion binding]; metal-binding site 342610000115 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 342610000116 hypothetical protein; Provisional; Region: PRK10736 342610000117 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 342610000118 Protein of unknown function (DUF494); Region: DUF494; cl01103 342610000119 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 342610000120 DNA topoisomerase I; Validated; Region: PRK05582 342610000121 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 342610000122 50S ribosomal protein L37Ae; Reviewed; Region: rpl37ae; PRK03976 342610000123 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 342610000124 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 342610000125 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 342610000126 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 342610000127 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 342610000128 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 342610000129 shikimate binding site; other site 342610000130 NAD(P) binding site [chemical binding]; other site 342610000131 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 342610000132 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 342610000133 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 342610000134 trimer interface [polypeptide binding]; other site 342610000135 putative metal binding site [ion binding]; other site 342610000136 DNA Polymerase Y-family; Region: PolY_like; cd03468 342610000137 active site 342610000138 DNA binding site [nucleotide binding] 342610000139 Cell division inhibitor SulA; Region: SulA; cl01880 342610000140 EVE domain; Region: EVE; cl00728 342610000141 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 342610000142 Domain of unknown function (DUF1820); Region: DUF1820; cl11545 342610000143 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 342610000144 PA_M28_1_1: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 1. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic...; Region: PA_M28_1_1; cd04820 342610000145 PA/protease or protease-like domain interface [polypeptide binding]; other site 342610000146 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_2; cd05661 342610000147 metal binding site [ion binding]; metal-binding site 342610000148 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 342610000149 division inhibitor protein; Provisional; Region: slmA; PRK09480 342610000150 Helix-turn-helix domains; Region: HTH; cl00088 342610000151 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 342610000152 Flavoprotein; Region: Flavoprotein; cl08021 342610000153 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 342610000154 hypothetical protein; Reviewed; Region: PRK00024 342610000155 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 342610000156 MPN+ (JAMM) motif; other site 342610000157 Zinc-binding site [ion binding]; other site 342610000158 N-terminal domain of Chondroitin polymerase functions as a GalNAc transferase; Region: GT2_Chondriotin_Pol_N; cd06420 342610000159 Substrate binding site; other site 342610000160 metal-binding site 342610000161 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 342610000162 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 342610000163 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 342610000164 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 342610000165 DNA binding site [nucleotide binding] 342610000166 catalytic residue [active] 342610000167 H2TH interface [polypeptide binding]; other site 342610000168 putative catalytic residues [active] 342610000169 turnover-facilitating residue; other site 342610000170 intercalation triad [nucleotide binding]; other site 342610000171 8OG recognition residue [nucleotide binding]; other site 342610000172 putative reading head residues; other site 342610000173 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 342610000174 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 342610000175 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 342610000176 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 342610000177 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 342610000178 active site 342610000179 (T/H)XGH motif; other site 342610000180 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 342610000181 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 342610000182 ATP binding site [chemical binding]; other site 342610000183 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 342610000184 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 342610000185 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 342610000186 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 342610000187 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 342610000188 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610000189 metal binding site [ion binding]; metal-binding site 342610000190 active site 342610000191 I-site; other site 342610000192 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 342610000193 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 342610000194 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 342610000195 substrate-cofactor binding pocket; other site 342610000196 pyridoxal 5'-phosphate binding site [chemical binding]; other site 342610000197 catalytic residue [active] 342610000198 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 342610000199 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 342610000200 NAD(P) binding site [chemical binding]; other site 342610000201 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 342610000202 active site residue [active] 342610000203 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 342610000204 intramembrane serine protease GlpG; Provisional; Region: PRK10907 342610000205 Rhomboid family; Region: Rhomboid; cl11446 342610000206 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 342610000207 UTRA domain; Region: UTRA; cl01230 342610000208 UbiA prenyltransferase family; Region: UbiA; cl00337 342610000209 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 342610000210 dimerization interface [polypeptide binding]; other site 342610000211 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 342610000212 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 342610000213 dimer interface [polypeptide binding]; other site 342610000214 putative CheW interface [polypeptide binding]; other site 342610000215 Membrane fusogenic activity; Region: BMFP; cl01115 342610000216 ATP-dependent DNA helicase Rep; Provisional; Region: PRK10919 342610000217 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610000218 Family description; Region: UvrD_C_2; cl15862 342610000219 GAF domain; Region: GAF; cl15785 342610000220 GAF domain; Region: GAF; cl15785 342610000221 GAF domain; Region: GAF_2; pfam13185 342610000222 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610000223 metal binding site [ion binding]; metal-binding site 342610000224 active site 342610000225 I-site; other site 342610000226 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 342610000227 Cytochrome c; Region: Cytochrom_C; cl11414 342610000228 DNA ligase; Provisional; Region: PRK09125 342610000229 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 342610000230 DNA binding site [nucleotide binding] 342610000231 active site 342610000232 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of kDNA ligase-like ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_kDNA_ligase_like; cd08041 342610000233 DNA binding site [nucleotide binding] 342610000234 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 342610000235 Bacterial Fe(2+) trafficking; Region: Iron_traffic; cl01104 342610000236 adenine DNA glycosylase; Provisional; Region: PRK10880 342610000237 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 342610000238 minor groove reading motif; other site 342610000239 helix-hairpin-helix signature motif; other site 342610000240 substrate binding pocket [chemical binding]; other site 342610000241 active site 342610000242 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 342610000243 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 342610000244 DNA binding and oxoG recognition site [nucleotide binding] 342610000245 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 342610000246 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 342610000247 Methyltransferase domain; Region: Methyltransf_31; pfam13847 342610000248 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 342610000249 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 342610000250 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 342610000251 glycogen synthase; Provisional; Region: glgA; PRK00654 342610000252 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 342610000253 ADP-binding pocket [chemical binding]; other site 342610000254 homodimer interface [polypeptide binding]; other site 342610000255 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 342610000256 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 342610000257 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 342610000258 dimer interface [polypeptide binding]; other site 342610000259 phosphorylation site [posttranslational modification] 342610000260 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 342610000261 ATP binding site [chemical binding]; other site 342610000262 Mg2+ binding site [ion binding]; other site 342610000263 G-X-G motif; other site 342610000264 two-component response regulator; Provisional; Region: PRK11173 342610000265 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 342610000266 active site 342610000267 phosphorylation site [posttranslational modification] 342610000268 intermolecular recognition site; other site 342610000269 dimerization interface [polypeptide binding]; other site 342610000270 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 342610000271 DNA binding site [nucleotide binding] 342610000272 FxsA cytoplasmic membrane protein; Region: FxsA; cl01148 342610000273 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 342610000274 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 342610000275 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 342610000276 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 342610000277 DsbD alpha interface [polypeptide binding]; other site 342610000278 catalytic residues [active] 342610000279 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 342610000280 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 342610000281 active site 342610000282 Protein of unknown function, DUF479; Region: DUF479; cl01203 342610000283 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 342610000284 trimer interface [polypeptide binding]; other site 342610000285 active site 342610000286 dimer interface [polypeptide binding]; other site 342610000287 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 342610000288 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 342610000289 carboxyltransferase (CT) interaction site; other site 342610000290 biotinylation site [posttranslational modification]; other site 342610000291 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 342610000292 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 342610000293 ATP-grasp domain; Region: ATP-grasp_4; cl03087 342610000294 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 342610000295 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 342610000296 MatE; Region: MatE; cl10513 342610000297 MatE; Region: MatE; cl10513 342610000298 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 342610000299 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 342610000300 S-adenosylmethionine binding site [chemical binding]; other site 342610000301 Helix-turn-helix domains; Region: HTH; cl00088 342610000302 nuc_hydro: Nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes vary in their substrate specificity. This group contains eukaryotic, bacterial and archeal...; Region: nuc_hydro; cl00226 342610000303 active site 342610000304 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 342610000305 Transcriptional regulators [Transcription]; Region: MarR; COG1846 342610000306 Helix-turn-helix domains; Region: HTH; cl00088 342610000307 OsmC-like protein; Region: OsmC; cl00767 342610000308 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 342610000309 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 342610000310 Walker A motif; other site 342610000311 ATP binding site [chemical binding]; other site 342610000312 Walker B motif; other site 342610000313 arginine finger; other site 342610000314 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 342610000315 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 342610000316 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 342610000317 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 342610000318 conserved cys residue [active] 342610000319 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610000320 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610000321 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 342610000322 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 342610000323 active site 342610000324 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 342610000325 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 342610000326 active site 342610000327 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 342610000328 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 342610000329 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 342610000330 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 342610000331 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 342610000332 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 342610000333 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 342610000334 structural tetrad; other site 342610000335 SlyX; Region: SlyX; cl01090 342610000336 Probable metal-binding protein (DUF2387); Region: DUF2387; cl01410 342610000337 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 342610000338 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610000339 Walker A/P-loop; other site 342610000340 ATP binding site [chemical binding]; other site 342610000341 Q-loop/lid; other site 342610000342 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 342610000343 ABC transporter; Region: ABC_tran_2; pfam12848 342610000344 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 342610000345 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 342610000346 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 342610000347 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 342610000348 Helix-turn-helix domains; Region: HTH; cl00088 342610000349 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 342610000350 putative dimerization interface [polypeptide binding]; other site 342610000351 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 342610000352 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 342610000353 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; cl15460 342610000354 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 342610000355 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; cl15460 342610000356 N-acyl-D-glucosamine 2-epimerase [Carbohydrate transport and metabolism]; Region: COG2942 342610000357 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 342610000358 dimerization interface [polypeptide binding]; other site 342610000359 putative active cleft [active] 342610000360 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 342610000361 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 342610000362 putative substrate translocation pore; other site 342610000363 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 342610000364 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; cl15460 342610000365 Transcriptional regulators [Transcription]; Region: PurR; COG1609 342610000366 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 342610000367 DNA binding site [nucleotide binding] 342610000368 domain linker motif; other site 342610000369 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 342610000370 dimerization interface [polypeptide binding]; other site 342610000371 ligand binding site [chemical binding]; other site 342610000372 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 342610000373 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610000374 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610000375 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 342610000376 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 342610000377 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 342610000378 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 342610000379 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 342610000380 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 342610000381 Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked glycoproteins. This enzyme is an amidase located inside lysosomes. Mutation of this gene in humans causes a genetic disorder known as aspartylglycosaminuria (AGU)...; Region: Glycosylasparaginase; cd04513 342610000382 active site 342610000383 dimer interface [polypeptide binding]; other site 342610000384 catalytic nucleophile [active] 342610000385 Endo-beta-N-acetylglucosaminidase (ENGase) hydrolyzes the N-N'-diacetylchitobiosyl core of N-glycosylproteins. The beta-1,4-glycosyl bond located between two N-acetylglucosamine residues is hydrolyzed such that N-acetylglucosamine 1 remains with the...; Region: GH85_ENGase; cd06547 342610000386 putative active site [active] 342610000387 CutC family; Region: CutC; cl01218 342610000388 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 342610000389 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 342610000390 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; cl15381 342610000391 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 342610000392 Sodium:solute symporter family; Region: SSF; cl00456 342610000393 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 342610000394 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; cl15460 342610000395 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 342610000396 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 342610000397 dimer interface [polypeptide binding]; other site 342610000398 active site 342610000399 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 342610000400 dimer interface [polypeptide binding]; other site 342610000401 active site 342610000402 putative hydrolase; Provisional; Region: PRK10985 342610000403 Uncharacterized protein family (UPF0270); Region: UPF0270; cl01180 342610000404 YceI-like domain; Region: YceI; cl01001 342610000405 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in cysteine...; Region: CysQ; cd01638 342610000406 active site 342610000407 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 342610000408 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 342610000409 dimer interface [polypeptide binding]; other site 342610000410 ADP-ribose binding site [chemical binding]; other site 342610000411 active site 342610000412 nudix motif; other site 342610000413 metal binding site [ion binding]; metal-binding site 342610000414 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 342610000415 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 342610000416 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 342610000417 dimer interface [polypeptide binding]; other site 342610000418 substrate binding site [chemical binding]; other site 342610000419 metal binding sites [ion binding]; metal-binding site 342610000420 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 342610000421 putative substrate translocation pore; other site 342610000422 Protein of unknown function (DUF3299); Region: DUF3299; cl01387 342610000423 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 342610000424 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 342610000425 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 342610000426 dimer interface [polypeptide binding]; other site 342610000427 putative CheW interface [polypeptide binding]; other site 342610000428 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 342610000429 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 342610000430 active site 342610000431 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 342610000432 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 342610000433 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 342610000434 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 342610000435 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 342610000436 Major Facilitator Superfamily; Region: MFS_1; pfam07690 342610000437 putative substrate translocation pore; other site 342610000438 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 342610000439 dimer interface [polypeptide binding]; other site 342610000440 ssDNA binding site [nucleotide binding]; other site 342610000441 tetramer (dimer of dimers) interface [polypeptide binding]; other site 342610000442 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610000443 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 342610000444 N-terminal plug; other site 342610000445 ligand-binding site [chemical binding]; other site 342610000446 Uncharacterized protein conserved in bacteria (DUF2256); Region: DUF2256; cl01792 342610000447 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 342610000448 DNA photolyase; Region: DNA_photolyase; pfam00875 342610000449 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 342610000450 cryptochrome, DASH family; Region: crypto_DASH; TIGR02765 342610000451 DNA photolyase; Region: DNA_photolyase; pfam00875 342610000452 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 342610000453 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 342610000454 Streptomyces aureofaciens putative aldehyde dehydrogenase AldA (AAD23400)-like; Region: ALDH_AldA-AAD23400; cd07106 342610000455 NAD(P) binding site [chemical binding]; other site 342610000456 catalytic residues [active] 342610000457 AMP-binding domain protein; Validated; Region: PRK08315 342610000458 AMP-binding enzyme; Region: AMP-binding; cl15778 342610000459 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 342610000460 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 342610000461 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 342610000462 N-terminal plug; other site 342610000463 ligand-binding site [chemical binding]; other site 342610000464 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 342610000465 Methylamine dehydrogenase, L chain; Region: Me-amine-dh_L; cl03812 342610000466 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 342610000467 DoxX; Region: DoxX; cl00976 342610000468 Methylamine dehydrogenase heavy chain (MADH); Region: Me-amine-dh_H; pfam06433 342610000469 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 342610000470 Helix-turn-helix domains; Region: HTH; cl00088 342610000471 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 342610000472 Helix-turn-helix domains; Region: HTH; cl00088 342610000473 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 342610000474 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 342610000475 inhibitor-cofactor binding pocket; inhibition site 342610000476 pyridoxal 5'-phosphate binding site [chemical binding]; other site 342610000477 catalytic residue [active] 342610000478 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 342610000479 Domain of unknown function (DUF1338); Region: DUF1338; cl02226 342610000480 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 342610000481 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 342610000482 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 342610000483 Secretin and TonB N terminus short domain; Region: STN; cl06624 342610000484 Secretin N-terminal domain; Region: Secretin_N_2; pfam07655 342610000485 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 342610000486 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 342610000487 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 342610000488 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 342610000489 Walker A motif; other site 342610000490 ATP binding site [chemical binding]; other site 342610000491 Walker B motif; other site 342610000492 arginine finger; other site 342610000493 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 342610000494 binding surface 342610000495 TPR motif; other site 342610000496 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 342610000497 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 342610000498 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 342610000499 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 342610000500 Walker A motif; other site 342610000501 ATP binding site [chemical binding]; other site 342610000502 Walker B motif; other site 342610000503 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 342610000504 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 342610000505 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 342610000506 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 342610000507 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 342610000508 CUB domain; extracellular domain; present in proteins mostly known to be involved in development; not found in prokaryotes, plants and yeast; Region: CUB; cd00041 342610000509 heterodimerization interface [polypeptide binding]; other site 342610000510 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 342610000511 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 342610000512 rod shape-determining protein MreB; Provisional; Region: PRK13927 342610000513 Actin; An ubiquitous protein involved in the formation of filaments that are a major component of the cytoskeleton. Interaction with myosin provides the basis of muscular contraction and many aspects of cell motility. Each actin protomer binds one...; Region: ACTIN; cl11528 342610000514 ATP binding site [chemical binding]; other site 342610000515 profilin binding site; other site 342610000516 rod shape-determining protein MreC; Provisional; Region: PRK13922 342610000517 rod shape-determining protein MreC; Region: MreC; pfam04085 342610000518 rod shape-determining protein MreD; Region: MreD; cl01087 342610000519 Maf-like protein; Region: Maf; pfam02545 342610000520 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 342610000521 active site 342610000522 dimer interface [polypeptide binding]; other site 342610000523 ribonuclease G; Provisional; Region: PRK11712 342610000524 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 342610000525 homodimer interface [polypeptide binding]; other site 342610000526 oligonucleotide binding site [chemical binding]; other site 342610000527 TIGR02099 family protein; Region: TIGR02099 342610000528 AsmA-like C-terminal region; Region: AsmA_2; cl15864 342610000529 Predicted amidohydrolase [General function prediction only]; Region: COG0388 342610000530 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 342610000531 putative active site [active] 342610000532 catalytic triad [active] 342610000533 dimer interface [polypeptide binding]; other site 342610000534 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 342610000535 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 342610000536 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 342610000537 Protein of unknown function (DUF615); Region: DUF615; cl01147 342610000538 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 342610000539 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 342610000540 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 342610000541 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 342610000542 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 342610000543 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 342610000544 putative C-terminal domain interface [polypeptide binding]; other site 342610000545 putative GSH binding site (G-site) [chemical binding]; other site 342610000546 putative dimer interface [polypeptide binding]; other site 342610000547 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 342610000548 N-terminal domain interface [polypeptide binding]; other site 342610000549 dimer interface [polypeptide binding]; other site 342610000550 substrate binding pocket (H-site) [chemical binding]; other site 342610000551 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 342610000552 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 342610000553 proline dipeptidase; Provisional; Region: PRK13607 342610000554 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 342610000555 active site 342610000556 lytic murein transglycosylase; Provisional; Region: PRK11619 342610000557 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 342610000558 N-acetyl-D-glucosamine binding site [chemical binding]; other site 342610000559 catalytic residue [active] 342610000560 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 342610000561 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 342610000562 substrate binding site [chemical binding]; other site 342610000563 oxyanion hole (OAH) forming residues; other site 342610000564 trimer interface [polypeptide binding]; other site 342610000565 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610000566 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 342610000567 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 342610000568 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 342610000569 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 342610000570 dimer interface [polypeptide binding]; other site 342610000571 active site 342610000572 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 342610000573 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 342610000574 N-terminal plug; other site 342610000575 ligand-binding site [chemical binding]; other site 342610000576 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 342610000577 Major Facilitator Superfamily; Region: MFS_1; pfam07690 342610000578 putative substrate translocation pore; other site 342610000579 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610000580 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 342610000581 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 342610000582 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 342610000583 Helix-turn-helix domains; Region: HTH; cl00088 342610000584 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610000585 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 342610000586 NAD(P) binding site [chemical binding]; other site 342610000587 active site 342610000588 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 342610000589 Patatin-like phospholipase; includes PNPLA8, PNPLA9, and Pat17; Region: Pat17_PNPLA8_PNPLA9_like; cd07199 342610000590 active site 342610000591 nucleophile elbow; other site 342610000592 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 342610000593 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 342610000594 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 342610000595 catalytic residue [active] 342610000596 Uncharacterized conserved protein [Function unknown]; Region: COG1284 342610000597 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 342610000598 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 342610000599 putative metal binding site [ion binding]; other site 342610000600 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 342610000601 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 342610000602 GDP-binding site [chemical binding]; other site 342610000603 ACT binding site; other site 342610000604 IMP binding site; other site 342610000605 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; cl01275 342610000606 sensory histidine kinase CreC; Provisional; Region: PRK11100 342610000607 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 342610000608 dimer interface [polypeptide binding]; other site 342610000609 phosphorylation site [posttranslational modification] 342610000610 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 342610000611 ATP binding site [chemical binding]; other site 342610000612 Mg2+ binding site [ion binding]; other site 342610000613 G-X-G motif; other site 342610000614 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 342610000615 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 342610000616 active site 342610000617 phosphorylation site [posttranslational modification] 342610000618 intermolecular recognition site; other site 342610000619 dimerization interface [polypeptide binding]; other site 342610000620 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 342610000621 DNA binding site [nucleotide binding] 342610000622 Spondin_N; Region: Spond_N; pfam06468 342610000623 Spondin_N; Region: Spond_N; pfam06468 342610000624 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 342610000625 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cd03873 342610000626 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cd03873 342610000627 metal binding site [ion binding]; metal-binding site 342610000628 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610000629 osmolarity response regulator; Provisional; Region: ompR; PRK09468 342610000630 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 342610000631 active site 342610000632 phosphorylation site [posttranslational modification] 342610000633 intermolecular recognition site; other site 342610000634 dimerization interface [polypeptide binding]; other site 342610000635 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 342610000636 DNA binding site [nucleotide binding] 342610000637 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 342610000638 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 342610000639 dimerization interface [polypeptide binding]; other site 342610000640 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 342610000641 dimer interface [polypeptide binding]; other site 342610000642 phosphorylation site [posttranslational modification] 342610000643 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 342610000644 ATP binding site [chemical binding]; other site 342610000645 Mg2+ binding site [ion binding]; other site 342610000646 G-X-G motif; other site 342610000647 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 342610000648 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 342610000649 dimerization interface [polypeptide binding]; other site 342610000650 domain crossover interface; other site 342610000651 redox-dependent activation switch; other site 342610000652 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 342610000653 RNA binding surface [nucleotide binding]; other site 342610000654 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 342610000655 NADP binding site [chemical binding]; other site 342610000656 homodimer interface [polypeptide binding]; other site 342610000657 active site 342610000658 general secretion pathway protein C; Region: typeII_sec_gspC; TIGR01713 342610000659 Type IV pilus biogenesis; Region: Pilus_PilP; cl11837 342610000660 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 342610000661 general secretion pathway protein D; Region: type_II_gspD; TIGR02517 342610000662 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 342610000663 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 342610000664 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 342610000665 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 342610000666 general secretory pathway protein E; Region: type_II_gspE; TIGR02533 342610000667 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 342610000668 Walker A motif; other site 342610000669 ATP binding site [chemical binding]; other site 342610000670 Walker B motif; other site 342610000671 general secretion pathway protein F; Region: GspF; TIGR02120 342610000672 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 342610000673 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 342610000674 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 342610000675 general secretion pathway protein G; Region: typeII_sec_gspG; TIGR01710 342610000676 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 342610000677 general secretion pathway protein H; Region: typeII_sec_gspH; TIGR01708 342610000678 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 342610000679 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 342610000680 general secretion pathway protein I; Region: gspI; TIGR01707 342610000681 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 342610000682 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 342610000683 general secretion pathway protein J; Region: gspJ; TIGR01711 342610000684 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 342610000685 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 342610000686 general secretion pathway protein L; Region: typeII_sec_gspL; TIGR01709 342610000687 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 342610000688 GspL periplasmic domain; Region: GspL_C; cl14909 342610000689 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 342610000690 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 342610000691 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 342610000692 AMP binding site [chemical binding]; other site 342610000693 metal binding site [ion binding]; metal-binding site 342610000694 active site 342610000695 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 342610000696 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 342610000697 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 342610000698 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 342610000699 S1/P1 nucleases and related enzymes; Region: S1-P1_nuclease; cd11010 342610000700 active site 342610000701 Zn binding site [ion binding]; other site 342610000702 methyltransferase, MtaA/CmuA family; Region: mtaA_cmuA; TIGR01463 342610000703 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 342610000704 substrate binding site [chemical binding]; other site 342610000705 active site 342610000706 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 342610000707 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 342610000708 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 342610000709 putative NADH binding site [chemical binding]; other site 342610000710 putative active site [active] 342610000711 nudix motif; other site 342610000712 putative metal binding site [ion binding]; other site 342610000713 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 342610000714 metal binding site 2 [ion binding]; metal-binding site 342610000715 putative DNA binding helix; other site 342610000716 metal binding site 1 [ion binding]; metal-binding site 342610000717 dimer interface [polypeptide binding]; other site 342610000718 structural Zn2+ binding site [ion binding]; other site 342610000719 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 342610000720 Chemotaxis phosphatase CheX; Region: CheX; cl15816 342610000721 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 342610000722 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 342610000723 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 342610000724 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 342610000725 ligand binding site [chemical binding]; other site 342610000726 replicative DNA helicase; Region: DnaB; TIGR00665 342610000727 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 342610000728 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 342610000729 Walker A motif; other site 342610000730 ATP binding site [chemical binding]; other site 342610000731 Walker B motif; other site 342610000732 DNA binding loops [nucleotide binding] 342610000733 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 342610000734 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610000735 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 342610000736 ATP binding site [chemical binding]; other site 342610000737 ATP binding site [chemical binding]; other site 342610000738 putative Mg++ binding site [ion binding]; other site 342610000739 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 342610000740 nucleotide binding region [chemical binding]; other site 342610000741 ATP-binding site [chemical binding]; other site 342610000742 RQC domain; Region: RQC; cl09632 342610000743 HRDC domain; Region: HRDC; cl02578 342610000744 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 342610000745 CoenzymeA binding site [chemical binding]; other site 342610000746 subunit interaction site [polypeptide binding]; other site 342610000747 PHB binding site; other site 342610000748 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 342610000749 apolar tunnel; other site 342610000750 heme binding site [chemical binding]; other site 342610000751 dimerization interface [polypeptide binding]; other site 342610000752 Protein of unknown function (DUF3034); Region: DUF3034; pfam11231 342610000753 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 342610000754 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610000755 metal binding site [ion binding]; metal-binding site 342610000756 active site 342610000757 I-site; other site 342610000758 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 342610000759 Mechanosensitive ion channel; Region: MS_channel; pfam00924 342610000760 Mechanosensitive ion channel; Region: MS_channel; pfam00924 342610000761 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 342610000762 Surface antigen; Region: Bac_surface_Ag; cl03097 342610000763 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 342610000764 Family of unknown function (DUF490); Region: DUF490; pfam04357 342610000765 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 342610000766 MgtE intracellular N domain; Region: MgtE_N; cl15244 342610000767 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 342610000768 Divalent cation transporter; Region: MgtE; cl00786 342610000769 BON domain; Region: BON; cl02771 342610000770 BON domain; Region: BON; cl02771 342610000771 Response regulator receiver domain; Region: Response_reg; pfam00072 342610000772 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 342610000773 active site 342610000774 phosphorylation site [posttranslational modification] 342610000775 intermolecular recognition site; other site 342610000776 dimerization interface [polypeptide binding]; other site 342610000777 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610000778 metal binding site [ion binding]; metal-binding site 342610000779 active site 342610000780 I-site; other site 342610000781 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 342610000782 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 342610000783 ATP-grasp domain; Region: ATP-grasp_4; cl03087 342610000784 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 342610000785 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 342610000786 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 342610000787 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 342610000788 purine monophosphate binding site [chemical binding]; other site 342610000789 dimer interface [polypeptide binding]; other site 342610000790 putative catalytic residues [active] 342610000791 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 342610000792 Helix-turn-helix domains; Region: HTH; cl00088 342610000793 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 342610000794 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 342610000795 FMN binding site [chemical binding]; other site 342610000796 active site 342610000797 catalytic residues [active] 342610000798 substrate binding site [chemical binding]; other site 342610000799 Protein of unknown function (DUF962); Region: DUF962; cl01879 342610000800 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 342610000801 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 342610000802 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 342610000803 binding surface 342610000804 TPR motif; other site 342610000805 Transcriptional regulator [Transcription]; Region: LysR; COG0583 342610000806 Helix-turn-helix domains; Region: HTH; cl00088 342610000807 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 342610000808 putative effector binding pocket; other site 342610000809 dimerization interface [polypeptide binding]; other site 342610000810 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 342610000811 putative catalytic residues [active] 342610000812 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 342610000813 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 342610000814 motif II; other site 342610000815 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 342610000816 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 342610000817 substrate binding pocket [chemical binding]; other site 342610000818 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 342610000819 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 342610000820 Predicted deacylase [General function prediction only]; Region: COG3608 342610000821 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_4; cd06254 342610000822 putative active site [active] 342610000823 Zn binding site [ion binding]; other site 342610000824 Tryptophan-rich protein (DUF2389); Region: DUF2389; cl09726 342610000825 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 342610000826 ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydC; COG4987 342610000827 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610000828 Walker A/P-loop; other site 342610000829 ATP binding site [chemical binding]; other site 342610000830 Q-loop/lid; other site 342610000831 ABC transporter signature motif; other site 342610000832 Walker B; other site 342610000833 D-loop; other site 342610000834 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 342610000835 macrolide transporter subunit MacA; Provisional; Region: PRK11578 342610000836 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 342610000837 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 342610000838 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 342610000839 glutamate dehydrogenase; Provisional; Region: PRK09414 342610000840 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 342610000841 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 342610000842 NAD(P) binding site [chemical binding]; other site 342610000843 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 342610000844 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 342610000845 Sodium:solute symporter family; Region: SSF; cl00456 342610000846 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 342610000847 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610000848 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 342610000849 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 342610000850 metal binding site [ion binding]; metal-binding site 342610000851 substrate binding pocket [chemical binding]; other site 342610000852 Transcriptional regulators [Transcription]; Region: PurR; COG1609 342610000853 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 342610000854 DNA binding site [nucleotide binding] 342610000855 domain linker motif; other site 342610000856 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 342610000857 putative dimerization interface [polypeptide binding]; other site 342610000858 putative ligand binding site [chemical binding]; other site 342610000859 BCCT family transporter; Region: BCCT; cl00569 342610000860 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 342610000861 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 342610000862 N-terminal plug; other site 342610000863 ligand-binding site [chemical binding]; other site 342610000864 Protein of unknown function (DUF2796); Region: DUF2796; pfam10986 342610000865 Helix-turn-helix domains; Region: HTH; cl00088 342610000866 metal binding site 2 [ion binding]; metal-binding site 342610000867 putative DNA binding helix; other site 342610000868 metal binding site 1 [ion binding]; metal-binding site 342610000869 dimer interface [polypeptide binding]; other site 342610000870 structural Zn2+ binding site [ion binding]; other site 342610000871 MerC mercury resistance protein; Region: MerC; cl03934 342610000872 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 342610000873 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610000874 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 342610000875 Protein of unknown function (DUF1826); Region: DUF1826; pfam08856 342610000876 Type I GTP cyclohydrolase folE2; Region: GCHY-1; cl00642 342610000877 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 342610000878 putative catalytic site [active] 342610000879 putative metal binding site [ion binding]; other site 342610000880 putative phosphate binding site [ion binding]; other site 342610000881 Protein of unknown function (DUF3299); Region: DUF3299; cl01387 342610000882 Protein of unknown function (DUF3299); Region: DUF3299; cl01387 342610000883 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 342610000884 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 342610000885 Walker A/P-loop; other site 342610000886 ATP binding site [chemical binding]; other site 342610000887 Q-loop/lid; other site 342610000888 ABC transporter signature motif; other site 342610000889 Walker B; other site 342610000890 D-loop; other site 342610000891 H-loop/switch region; other site 342610000892 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 342610000893 FtsX-like permease family; Region: FtsX; cl15850 342610000894 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 342610000895 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 342610000896 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 342610000897 ferric-rhodotorulic acid outer membrane transporter; Provisional; Region: PRK10003 342610000898 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 342610000899 N-terminal plug; other site 342610000900 ligand-binding site [chemical binding]; other site 342610000901 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 342610000902 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 342610000903 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 342610000904 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 342610000905 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 342610000906 conserved cys residue [active] 342610000907 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610000908 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610000909 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 342610000910 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 342610000911 active site 342610000912 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 342610000913 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 342610000914 FMN binding site [chemical binding]; other site 342610000915 substrate binding site [chemical binding]; other site 342610000916 putative catalytic residue [active] 342610000917 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 342610000918 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 342610000919 enoyl-CoA hydratase; Provisional; Region: PRK05995 342610000920 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 342610000921 substrate binding site [chemical binding]; other site 342610000922 oxyanion hole (OAH) forming residues; other site 342610000923 trimer interface [polypeptide binding]; other site 342610000924 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 342610000925 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 342610000926 ATP-grasp domain; Region: ATP-grasp_4; cl03087 342610000927 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 342610000928 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 342610000929 carboxyltransferase (CT) interaction site; other site 342610000930 biotinylation site [posttranslational modification]; other site 342610000931 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 342610000932 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 342610000933 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 342610000934 NAD(P) binding site [chemical binding]; other site 342610000935 substrate binding site [chemical binding]; other site 342610000936 homotetramer interface [polypeptide binding]; other site 342610000937 active site 342610000938 homodimer interface [polypeptide binding]; other site 342610000939 acyl-CoA synthetase; Validated; Region: PRK08316 342610000940 AMP-binding enzyme; Region: AMP-binding; cl15778 342610000941 Family description; Region: VCBS; pfam13517 342610000942 Family description; Region: VCBS; pfam13517 342610000943 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 342610000944 trimer interface [polypeptide binding]; other site 342610000945 active site 342610000946 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 342610000947 N-acyl-D-glucosamine 2-epimerase [Carbohydrate transport and metabolism]; Region: COG2942 342610000948 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 342610000949 dimerization interface [polypeptide binding]; other site 342610000950 putative active cleft [active] 342610000951 alpha-glucosidase; Provisional; Region: PRK10137 342610000952 Mannosyl oligosaccharide glucosidase; Region: Glyco_hydro_63; pfam03200 342610000953 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 342610000954 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610000955 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610000956 Sodium:solute symporter family; Region: SSF; cl00456 342610000957 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 342610000958 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 342610000959 MOFRL family; Region: MOFRL; pfam05161 342610000960 Helix-turn-helix domains; Region: HTH; cl00088 342610000961 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 342610000962 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 342610000963 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 342610000964 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 342610000965 HemY protein N-terminus; Region: HemY_N; pfam07219 342610000966 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 342610000967 TPR motif; other site 342610000968 binding surface 342610000969 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed; Region: PRK06975 342610000970 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 342610000971 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 342610000972 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 342610000973 active site 342610000974 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 342610000975 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 342610000976 domain interfaces; other site 342610000977 active site 342610000978 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 342610000979 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 342610000980 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 342610000981 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 342610000982 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 342610000983 putative iron binding site [ion binding]; other site 342610000984 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 342610000985 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 342610000986 catalytic site [active] 342610000987 G-X2-G-X-G-K; other site 342610000988 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 342610000989 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 342610000990 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 342610000991 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 342610000992 synthetase active site [active] 342610000993 NTP binding site [chemical binding]; other site 342610000994 metal binding site [ion binding]; metal-binding site 342610000995 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 342610000996 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 342610000997 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 342610000998 homotrimer interaction site [polypeptide binding]; other site 342610000999 putative active site [active] 342610001000 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 342610001001 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 342610001002 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 342610001003 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 342610001004 putative catalytic residues [active] 342610001005 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 342610001006 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 342610001007 generic binding surface II; other site 342610001008 ssDNA binding site; other site 342610001009 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 342610001010 ATP binding site [chemical binding]; other site 342610001011 putative Mg++ binding site [ion binding]; other site 342610001012 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 342610001013 nucleotide binding region [chemical binding]; other site 342610001014 ATP-binding site [chemical binding]; other site 342610001015 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 342610001016 S-adenosylmethionine binding site [chemical binding]; other site 342610001017 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_16; cd07263 342610001018 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 342610001019 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 342610001020 catalytic triad [active] 342610001021 dimer interface [polypeptide binding]; other site 342610001022 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 342610001023 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610001024 Walker A/P-loop; other site 342610001025 ATP binding site [chemical binding]; other site 342610001026 Q-loop/lid; other site 342610001027 ABC transporter signature motif; other site 342610001028 Walker B; other site 342610001029 D-loop; other site 342610001030 H-loop/switch region; other site 342610001031 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 342610001032 Autoinducer binding domain; Region: Autoind_bind; pfam03472 342610001033 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 342610001034 DNA binding residues [nucleotide binding] 342610001035 dimerization interface [polypeptide binding]; other site 342610001036 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 342610001037 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 342610001038 Peptidase family M48; Region: Peptidase_M48; cl12018 342610001039 Putative cyclase; Region: Cyclase; cl00814 342610001040 HI0933-like protein; Region: HI0933_like; pfam03486 342610001041 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610001042 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610001043 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 342610001044 N-terminal plug; other site 342610001045 ligand-binding site [chemical binding]; other site 342610001046 Predicted ferric reductase [Inorganic ion transport and metabolism]; Region: COG4097 342610001047 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 342610001048 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P)...; Region: FNR_like_3; cd06198 342610001049 FAD binding pocket [chemical binding]; other site 342610001050 FAD binding motif [chemical binding]; other site 342610001051 phosphate binding motif [ion binding]; other site 342610001052 beta-alpha-beta structure motif; other site 342610001053 NAD binding pocket [chemical binding]; other site 342610001054 Succinate dehydrogenase/fumarate reductase, flavoprotein subunit [Energy production and conversion]; Region: SdhA; COG1053 342610001055 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610001056 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 342610001057 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 342610001058 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 342610001059 Transcriptional regulator [Transcription]; Region: IclR; COG1414 342610001060 Helix-turn-helix domains; Region: HTH; cl00088 342610001061 Bacterial transcriptional regulator; Region: IclR; pfam01614 342610001062 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 342610001063 Sulfatase; Region: Sulfatase; cl10460 342610001064 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 342610001065 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 342610001066 Protein of unknown function (DUF1499); Region: DUF1499; cl01841 342610001067 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 342610001068 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 342610001069 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 342610001070 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610001071 Walker A/P-loop; other site 342610001072 ATP binding site [chemical binding]; other site 342610001073 ABC transporter; Region: ABC_tran; pfam00005 342610001074 Q-loop/lid; other site 342610001075 ABC transporter signature motif; other site 342610001076 Walker B; other site 342610001077 D-loop; other site 342610001078 H-loop/switch region; other site 342610001079 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4135 342610001080 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 342610001081 dimer interface [polypeptide binding]; other site 342610001082 conserved gate region; other site 342610001083 putative PBP binding loops; other site 342610001084 ABC-ATPase subunit interface; other site 342610001085 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 342610001086 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 342610001087 Protein of unknown function, DUF547; Region: DUF547; pfam04784 342610001088 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 342610001089 mercuric reductase; Validated; Region: PRK06370 342610001090 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610001091 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 342610001092 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 342610001093 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 342610001094 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610001095 sugar efflux transporter; Region: 2A0120; TIGR00899 342610001096 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 342610001097 putative substrate translocation pore; other site 342610001098 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 342610001099 PAS domain; Region: PAS_9; pfam13426 342610001100 putative active site [active] 342610001101 heme pocket [chemical binding]; other site 342610001102 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610001103 metal binding site [ion binding]; metal-binding site 342610001104 active site 342610001105 I-site; other site 342610001106 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 342610001107 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 342610001108 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 342610001109 catalytic residue [active] 342610001110 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 342610001111 DNA binding site [nucleotide binding] 342610001112 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610001113 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 342610001114 Protein export membrane protein; Region: SecD_SecF; cl14618 342610001115 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 342610001116 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 342610001117 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 342610001118 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 342610001119 PA_M28_1_2: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 2. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic...; Region: PA_M28_1_2; cd04821 342610001120 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 342610001121 PA/protease or protease-like domain interface [polypeptide binding]; other site 342610001122 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_1; cd05660 342610001123 metal binding site [ion binding]; metal-binding site 342610001124 DsrE/DsrF-like family; Region: DrsE; cl00672 342610001125 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 342610001126 ATP-grasp domain; Region: ATP-grasp_4; cl03087 342610001127 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 342610001128 Helix-turn-helix domains; Region: HTH; cl00088 342610001129 Tryptophan 2,3-dioxygenase; Region: Trp_dioxygenase; cl03994 342610001130 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 342610001131 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 342610001132 catalytic residue [active] 342610001133 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 342610001134 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 342610001135 active site 342610001136 motif I; other site 342610001137 motif II; other site 342610001138 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610001139 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 342610001140 N-terminal plug; other site 342610001141 ligand-binding site [chemical binding]; other site 342610001142 ferredoxin-NADP reductase; Provisional; Region: PRK10926 342610001143 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 342610001144 FAD binding pocket [chemical binding]; other site 342610001145 FAD binding motif [chemical binding]; other site 342610001146 phosphate binding motif [ion binding]; other site 342610001147 beta-alpha-beta structure motif; other site 342610001148 NAD binding pocket [chemical binding]; other site 342610001149 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 342610001150 siroheme synthase; Provisional; Region: cysG; PRK10637 342610001151 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610001152 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 342610001153 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 342610001154 ATP-dependent RNA helicase DeaD; Provisional; Region: PRK11634 342610001155 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 342610001156 ATP binding site [chemical binding]; other site 342610001157 Mg++ binding site [ion binding]; other site 342610001158 motif III; other site 342610001159 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 342610001160 nucleotide binding region [chemical binding]; other site 342610001161 ATP-binding site [chemical binding]; other site 342610001162 DbpA RNA binding domain; Region: DbpA; pfam03880 342610001163 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 342610001164 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 342610001165 binding surface 342610001166 TPR motif; other site 342610001167 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 342610001168 binding surface 342610001169 TPR motif; other site 342610001170 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 342610001171 TPR motif; other site 342610001172 binding surface 342610001173 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 342610001174 TPR motif; other site 342610001175 binding surface 342610001176 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 342610001177 TPR motif; other site 342610001178 binding surface 342610001179 thioredoxin 2; Provisional; Region: PRK10996 342610001180 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 342610001181 catalytic residues [active] 342610001182 Polycystin cation channel; Region: PKD_channel; pfam08016 342610001183 Ion transport protein; Region: Ion_trans; pfam00520 342610001184 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 342610001185 heme binding pocket [chemical binding]; other site 342610001186 heme ligand [chemical binding]; other site 342610001187 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 342610001188 GAF domain; Region: GAF; cl15785 342610001189 Phytochrome region; Region: PHY; pfam00360 342610001190 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 342610001191 dimer interface [polypeptide binding]; other site 342610001192 phosphorylation site [posttranslational modification] 342610001193 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 342610001194 ATP binding site [chemical binding]; other site 342610001195 Mg2+ binding site [ion binding]; other site 342610001196 G-X-G motif; other site 342610001197 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 342610001198 active site 342610001199 phosphorylation site [posttranslational modification] 342610001200 intermolecular recognition site; other site 342610001201 dimerization interface [polypeptide binding]; other site 342610001202 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 342610001203 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 342610001204 putative active site [active] 342610001205 metal binding site [ion binding]; metal-binding site 342610001206 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 342610001207 active site 342610001208 Class I hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classI; cd00643 342610001209 tetramerization interface [polypeptide binding]; other site 342610001210 substrate binding pocket [chemical binding]; other site 342610001211 catalytic residues [active] 342610001212 inhibitor binding sites; inhibition site 342610001213 NADP(H) binding site [chemical binding]; other site 342610001214 Ferredoxin [Energy production and conversion]; Region: COG1146 342610001215 4Fe-4S binding domain; Region: Fer4; cl02805 342610001216 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 342610001217 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 342610001218 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 342610001219 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 342610001220 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 342610001221 dimer interface [polypeptide binding]; other site 342610001222 ADP-ribose binding site [chemical binding]; other site 342610001223 active site 342610001224 nudix motif; other site 342610001225 metal binding site [ion binding]; metal-binding site 342610001226 Protein of unknown function (DUF1249); Region: DUF1249; cl01223 342610001227 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 342610001228 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 342610001229 active site 342610001230 metal binding site [ion binding]; metal-binding site 342610001231 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 342610001232 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 342610001233 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 342610001234 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 342610001235 ATP binding site [chemical binding]; other site 342610001236 Mg2+ binding site [ion binding]; other site 342610001237 G-X-G motif; other site 342610001238 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 342610001239 anchoring element; other site 342610001240 dimer interface [polypeptide binding]; other site 342610001241 ATP binding site [chemical binding]; other site 342610001242 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 342610001243 active site 342610001244 metal binding site [ion binding]; metal-binding site 342610001245 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 342610001246 Predicted periplasmic lipoprotein (DUF2279); Region: DUF2279; cl11574 342610001247 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 342610001248 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 342610001249 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 342610001250 elongation factor P; Validated; Region: PRK00529 342610001251 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 342610001252 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 342610001253 RNA binding site [nucleotide binding]; other site 342610001254 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 342610001255 RNA binding site [nucleotide binding]; other site 342610001256 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 342610001257 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 342610001258 motif 1; other site 342610001259 dimer interface [polypeptide binding]; other site 342610001260 active site 342610001261 motif 2; other site 342610001262 motif 3; other site 342610001263 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610001264 metal binding site [ion binding]; metal-binding site 342610001265 active site 342610001266 I-site; other site 342610001267 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 342610001268 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 342610001269 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 342610001270 substrate binding site [chemical binding]; other site 342610001271 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 342610001272 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 342610001273 S-adenosylmethionine binding site [chemical binding]; other site 342610001274 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 342610001275 BolA-like protein; Region: BolA; cl00386 342610001276 Proteolipid membrane potential modulator; Region: Pmp3; cl00431 342610001277 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 342610001278 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 342610001279 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610001280 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 342610001281 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 342610001282 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 342610001283 E3 interaction surface; other site 342610001284 lipoyl attachment site [posttranslational modification]; other site 342610001285 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 342610001286 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 342610001287 FMN-binding domain; Region: FMN_bind; cl01081 342610001288 Na+-transporting NADH:ubiquinone oxidoreductase, subunit NqrC [Energy production and conversion]; Region: NqrC; COG2869 342610001289 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 342610001290 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 342610001291 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 342610001292 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 342610001293 FAD binding pocket [chemical binding]; other site 342610001294 FAD binding motif [chemical binding]; other site 342610001295 phosphate binding motif [ion binding]; other site 342610001296 beta-alpha-beta structure motif; other site 342610001297 NAD binding pocket [chemical binding]; other site 342610001298 ApbE family; Region: ApbE; cl00643 342610001299 Protein of unknown function (DUF539); Region: DUF539; cl01129 342610001300 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 342610001301 active site 342610001302 DNA polymerase IV; Validated; Region: PRK02406 342610001303 DNA binding site [nucleotide binding] 342610001304 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 342610001305 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 342610001306 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 342610001307 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 342610001308 active site 342610001309 elongation factor G; Reviewed; Region: PRK00007 342610001310 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 342610001311 G1 box; other site 342610001312 putative GEF interaction site [polypeptide binding]; other site 342610001313 GTP/Mg2+ binding site [chemical binding]; other site 342610001314 Switch I region; other site 342610001315 G2 box; other site 342610001316 G3 box; other site 342610001317 Switch II region; other site 342610001318 G4 box; other site 342610001319 G5 box; other site 342610001320 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 342610001321 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 342610001322 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 342610001323 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610001324 metal binding site [ion binding]; metal-binding site 342610001325 active site 342610001326 I-site; other site 342610001327 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 342610001328 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 342610001329 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 342610001330 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 342610001331 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 342610001332 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 342610001333 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 342610001334 active site 342610001335 GAF domain; Region: GAF; cl15785 342610001336 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 342610001337 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 342610001338 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 342610001339 Walker A motif; other site 342610001340 ATP binding site [chemical binding]; other site 342610001341 Walker B motif; other site 342610001342 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 342610001343 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 342610001344 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 342610001345 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 342610001346 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 342610001347 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 342610001348 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 342610001349 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 342610001350 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 342610001351 putative translocon binding site; other site 342610001352 protein-rRNA interface [nucleotide binding]; other site 342610001353 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 342610001354 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 342610001355 G-X-X-G motif; other site 342610001356 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 342610001357 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 342610001358 23S rRNA interface [nucleotide binding]; other site 342610001359 5S rRNA interface [nucleotide binding]; other site 342610001360 putative antibiotic binding site [chemical binding]; other site 342610001361 L25 interface [polypeptide binding]; other site 342610001362 L27 interface [polypeptide binding]; other site 342610001363 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 342610001364 23S rRNA interface [nucleotide binding]; other site 342610001365 putative translocon interaction site; other site 342610001366 signal recognition particle (SRP54) interaction site; other site 342610001367 L23 interface [polypeptide binding]; other site 342610001368 trigger factor interaction site; other site 342610001369 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 342610001370 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; cd00136 342610001371 protein binding site [polypeptide binding]; other site 342610001372 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 342610001373 Active site serine [active] 342610001374 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610001375 metal binding site [ion binding]; metal-binding site 342610001376 active site 342610001377 I-site; other site 342610001378 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 342610001379 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 342610001380 tetramer interface [polypeptide binding]; other site 342610001381 heme binding pocket [chemical binding]; other site 342610001382 NADPH binding site [chemical binding]; other site 342610001383 Paraquat-inducible protein A; Region: PqiA; pfam04403 342610001384 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 342610001385 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 342610001386 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 342610001387 putative active site [active] 342610001388 putative substrate binding site [chemical binding]; other site 342610001389 putative cosubstrate binding site; other site 342610001390 catalytic site [active] 342610001391 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 342610001392 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 342610001393 ATP-dependent RNA helicase HrpB; Provisional; Region: PRK11664 342610001394 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 342610001395 ATP binding site [chemical binding]; other site 342610001396 putative Mg++ binding site [ion binding]; other site 342610001397 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 342610001398 nucleotide binding region [chemical binding]; other site 342610001399 ATP-binding site [chemical binding]; other site 342610001400 Helicase associated domain (HA2); Region: HA2; cl04503 342610001401 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 342610001402 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 342610001403 Transglycosylase; Region: Transgly; cl07896 342610001404 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 342610001405 Nitrogen regulatory protein P-II; Region: P-II; cl00412 342610001406 Nitrogen regulatory protein P-II; Region: P-II; smart00938 342610001407 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 342610001408 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 342610001409 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 342610001410 cyclase homology domain; Region: CHD; cd07302 342610001411 nucleotidyl binding site; other site 342610001412 metal binding site [ion binding]; metal-binding site 342610001413 dimer interface [polypeptide binding]; other site 342610001414 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 342610001415 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 342610001416 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 342610001417 inhibitor-cofactor binding pocket; inhibition site 342610001418 pyridoxal 5'-phosphate binding site [chemical binding]; other site 342610001419 catalytic residue [active] 342610001420 aspartate carbamoyltransferase; Provisional; Region: PRK08192 342610001421 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 342610001422 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610001423 SGNH_hydrolase subfamily, FeeA, FeeB and similar esterases/lipases. FeeA and FeeB are part of a biosynthetic gene cluster and may participate in the biosynthesis of long-chain N-acyltyrosines by providing saturated and unsaturated fatty acids, which it...; Region: FeeA_FeeB_like; cd01836 342610001424 active site 342610001425 catalytic triad [active] 342610001426 oxyanion hole [active] 342610001427 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 342610001428 active site 342610001429 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 342610001430 Helix-turn-helix domains; Region: HTH; cl00088 342610001431 Helix-turn-helix domains; Region: HTH; cl00088 342610001432 LysE type translocator; Region: LysE; cl00565 342610001433 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 342610001434 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 342610001435 Ser-Thr-rich glycosyl-phosphatidyl-inositol-anchored membrane family; Region: GPI-anchored; pfam10342 342610001436 Protein of unknown function (DUF2982); Region: DUF2982; pfam11201 342610001437 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 342610001438 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 342610001439 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 342610001440 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 342610001441 dimer interface [polypeptide binding]; other site 342610001442 phosphorylation site [posttranslational modification] 342610001443 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 342610001444 ATP binding site [chemical binding]; other site 342610001445 Mg2+ binding site [ion binding]; other site 342610001446 G-X-G motif; other site 342610001447 Response regulator receiver domain; Region: Response_reg; pfam00072 342610001448 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 342610001449 active site 342610001450 phosphorylation site [posttranslational modification] 342610001451 intermolecular recognition site; other site 342610001452 dimerization interface [polypeptide binding]; other site 342610001453 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 342610001454 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 342610001455 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 342610001456 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 342610001457 CAP-like domain; other site 342610001458 active site 342610001459 primary dimer interface [polypeptide binding]; other site 342610001460 Carboxylesterase family; Region: COesterase; pfam00135 342610001461 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 342610001462 substrate binding pocket [chemical binding]; other site 342610001463 catalytic triad [active] 342610001464 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 342610001465 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 342610001466 active site 342610001467 Zn binding site [ion binding]; other site 342610001468 Helix-turn-helix domains; Region: HTH; cl00088 342610001469 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 342610001470 putative peptidase; Provisional; Region: PRK11649 342610001471 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 342610001472 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 342610001473 active site 342610001474 HIGH motif; other site 342610001475 dimer interface [polypeptide binding]; other site 342610001476 KMSKS motif; other site 342610001477 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 342610001478 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 342610001479 CobD/Cbib protein; Region: CobD_Cbib; cl00561 342610001480 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 342610001481 Cache domain; Region: Cache_2; cl07034 342610001482 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 342610001483 dimerization interface [polypeptide binding]; other site 342610001484 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 342610001485 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 342610001486 dimer interface [polypeptide binding]; other site 342610001487 putative CheW interface [polypeptide binding]; other site 342610001488 acetyl-CoA synthetase; Provisional; Region: PRK00174 342610001489 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 342610001490 AMP-binding enzyme; Region: AMP-binding; cl15778 342610001491 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 342610001492 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 342610001493 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 342610001494 active site 342610001495 phosphorylation site [posttranslational modification] 342610001496 intermolecular recognition site; other site 342610001497 dimerization interface [polypeptide binding]; other site 342610001498 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 342610001499 DNA binding residues [nucleotide binding] 342610001500 dimerization interface [polypeptide binding]; other site 342610001501 Sodium:solute symporter family; Region: SSF; cl00456 342610001502 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 342610001503 PAS fold; Region: PAS_7; pfam12860 342610001504 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 342610001505 dimer interface [polypeptide binding]; other site 342610001506 phosphorylation site [posttranslational modification] 342610001507 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 342610001508 ATP binding site [chemical binding]; other site 342610001509 Mg2+ binding site [ion binding]; other site 342610001510 G-X-G motif; other site 342610001511 Response regulator receiver domain; Region: Response_reg; pfam00072 342610001512 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 342610001513 active site 342610001514 phosphorylation site [posttranslational modification] 342610001515 intermolecular recognition site; other site 342610001516 dimerization interface [polypeptide binding]; other site 342610001517 Domain of unknown function (DUF4212); Region: DUF4212; cl01781 342610001518 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 342610001519 Sodium:solute symporter family; Region: SSF; cl00456 342610001520 FIST N domain; Region: FIST; cl10701 342610001521 FIST C domain; Region: FIST_C; pfam10442 342610001522 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610001523 metal binding site [ion binding]; metal-binding site 342610001524 active site 342610001525 I-site; other site 342610001526 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 342610001527 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 342610001528 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 342610001529 ligand binding site [chemical binding]; other site 342610001530 flexible hinge region; other site 342610001531 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 342610001532 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 342610001533 metal binding triad; other site 342610001534 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 342610001535 active site 342610001536 catalytic site [active] 342610001537 substrate binding site [chemical binding]; other site 342610001538 TPR repeat; Region: TPR_11; pfam13414 342610001539 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 342610001540 binding surface 342610001541 TPR motif; other site 342610001542 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 342610001543 binding surface 342610001544 TPR motif; other site 342610001545 TPR repeat; Region: TPR_11; pfam13414 342610001546 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; cl14733 342610001547 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 342610001548 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 342610001549 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 342610001550 Nucleoside recognition; Region: Gate; cl00486 342610001551 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 342610001552 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 342610001553 ATP-binding site [chemical binding]; other site 342610001554 Sugar specificity; other site 342610001555 Pyrimidine base specificity; other site 342610001556 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 342610001557 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 342610001558 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610001559 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 342610001560 putative metal binding site [ion binding]; other site 342610001561 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 342610001562 arginine repressor; Provisional; Region: PRK05066 342610001563 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 342610001564 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 342610001565 malate dehydrogenase; Provisional; Region: PRK05086 342610001566 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 342610001567 NAD binding site [chemical binding]; other site 342610001568 dimerization interface [polypeptide binding]; other site 342610001569 Substrate binding site [chemical binding]; other site 342610001570 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 342610001571 Protein of unknown function (DUF2937); Region: DUF2937; pfam11157 342610001572 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 342610001573 Ca2+ binding site [ion binding]; other site 342610001574 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 342610001575 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 342610001576 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 342610001577 Cl- selectivity filter; other site 342610001578 Cl- binding residues [ion binding]; other site 342610001579 pore gating glutamate residue; other site 342610001580 dimer interface [polypeptide binding]; other site 342610001581 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 342610001582 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 342610001583 homodecamer interface [polypeptide binding]; other site 342610001584 GTP cyclohydrolase I; Provisional; Region: PLN03044 342610001585 active site 342610001586 putative catalytic site residues [active] 342610001587 zinc binding site [ion binding]; other site 342610001588 GTP-CH-I/GFRP interaction surface; other site 342610001589 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 342610001590 Transcriptional regulator; Region: Transcrip_reg; cl00361 342610001591 Predicted ATPase [General function prediction only]; Region: COG1485 342610001592 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 342610001593 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 342610001594 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 342610001595 protein binding site [polypeptide binding]; other site 342610001596 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 342610001597 serine endoprotease; Provisional; Region: PRK10898 342610001598 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 342610001599 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 342610001600 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 342610001601 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 342610001602 hinge; other site 342610001603 active site 342610001604 BolA-like protein; Region: BolA; cl00386 342610001605 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 342610001606 anti sigma factor interaction site; other site 342610001607 regulatory phosphorylation site [posttranslational modification]; other site 342610001608 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 342610001609 mce related protein; Region: MCE; pfam02470 342610001610 Permease; Region: Permease; cl00510 342610001611 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 342610001612 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 342610001613 Walker A/P-loop; other site 342610001614 ATP binding site [chemical binding]; other site 342610001615 Q-loop/lid; other site 342610001616 ABC transporter signature motif; other site 342610001617 Walker B; other site 342610001618 D-loop; other site 342610001619 H-loop/switch region; other site 342610001620 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 342610001621 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 342610001622 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 342610001623 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 342610001624 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 342610001625 putative active site [active] 342610001626 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 342610001627 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 342610001628 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 342610001629 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 342610001630 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 342610001631 OstA-like protein; Region: OstA; cl00844 342610001632 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 342610001633 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 342610001634 Walker A/P-loop; other site 342610001635 ATP binding site [chemical binding]; other site 342610001636 Q-loop/lid; other site 342610001637 ABC transporter signature motif; other site 342610001638 Walker B; other site 342610001639 D-loop; other site 342610001640 H-loop/switch region; other site 342610001641 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 342610001642 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 342610001643 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 342610001644 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 342610001645 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 342610001646 30S subunit binding site; other site 342610001647 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 342610001648 active site 342610001649 phosphorylation site [posttranslational modification] 342610001650 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 342610001651 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 342610001652 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 342610001653 dimerization domain swap beta strand [polypeptide binding]; other site 342610001654 regulatory protein interface [polypeptide binding]; other site 342610001655 active site 342610001656 regulatory phosphorylation site [posttranslational modification]; other site 342610001657 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 342610001658 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 342610001659 active site 342610001660 substrate binding site [chemical binding]; other site 342610001661 Mg2+ binding site [ion binding]; other site 342610001662 ApbE family; Region: ApbE; cl00643 342610001663 Protein of unknown function (DUF3570); Region: DUF3570; pfam12094 342610001664 Domain of unknown function (DUF4266); Region: DUF4266; pfam14086 342610001665 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 342610001666 catalytic residues [active] 342610001667 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 342610001668 metal binding site [ion binding]; metal-binding site 342610001669 Predicted transcriptional regulators [Transcription]; Region: COG1510 342610001670 Helix-turn-helix domains; Region: HTH; cl00088 342610001671 Lipocalin / cytosolic fatty-acid binding protein family; Region: Lipocalin; cl01150 342610001672 hypothetical protein; Provisional; Region: PRK10220 342610001673 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 342610001674 PhnA protein; Region: PhnA; pfam03831 342610001675 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 342610001676 putative acyl-acceptor binding pocket; other site 342610001677 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 342610001678 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 342610001679 active site 342610001680 substrate binding pocket [chemical binding]; other site 342610001681 dimer interface [polypeptide binding]; other site 342610001682 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 342610001683 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 342610001684 substrate binding pocket [chemical binding]; other site 342610001685 membrane-bound complex binding site; other site 342610001686 hinge residues; other site 342610001687 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl15306 342610001688 substrate binding pocket [chemical binding]; other site 342610001689 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 342610001690 membrane-bound complex binding site; other site 342610001691 hinge residues; other site 342610001692 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 342610001693 substrate binding site [chemical binding]; other site 342610001694 oxyanion hole (OAH) forming residues; other site 342610001695 trimer interface [polypeptide binding]; other site 342610001696 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 342610001697 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 342610001698 ATP binding site [chemical binding]; other site 342610001699 Mg++ binding site [ion binding]; other site 342610001700 motif III; other site 342610001701 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 342610001702 nucleotide binding region [chemical binding]; other site 342610001703 ATP-binding site [chemical binding]; other site 342610001704 DbpA RNA binding domain; Region: DbpA; pfam03880 342610001705 PilZ domain; Region: PilZ; cl01260 342610001706 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 342610001707 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 342610001708 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 342610001709 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 342610001710 Walker A/P-loop; other site 342610001711 ATP binding site [chemical binding]; other site 342610001712 Q-loop/lid; other site 342610001713 ABC transporter signature motif; other site 342610001714 Walker B; other site 342610001715 D-loop; other site 342610001716 H-loop/switch region; other site 342610001717 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 342610001718 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 342610001719 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 342610001720 putative homodimer interface [polypeptide binding]; other site 342610001721 KOW motif; Region: KOW; cl00354 342610001722 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 342610001723 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 342610001724 23S rRNA interface [nucleotide binding]; other site 342610001725 L7/L12 interface [polypeptide binding]; other site 342610001726 putative thiostrepton binding site; other site 342610001727 L25 interface [polypeptide binding]; other site 342610001728 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 342610001729 mRNA/rRNA interface [nucleotide binding]; other site 342610001730 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 342610001731 23S rRNA interface [nucleotide binding]; other site 342610001732 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 342610001733 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 342610001734 core dimer interface [polypeptide binding]; other site 342610001735 peripheral dimer interface [polypeptide binding]; other site 342610001736 L10 interface [polypeptide binding]; other site 342610001737 L11 interface [polypeptide binding]; other site 342610001738 putative EF-Tu interaction site [polypeptide binding]; other site 342610001739 putative EF-G interaction site [polypeptide binding]; other site 342610001740 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 342610001741 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 342610001742 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; pfam04563 342610001743 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 342610001744 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 342610001745 RPB11 interaction site [polypeptide binding]; other site 342610001746 RPB12 interaction site [polypeptide binding]; other site 342610001747 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 342610001748 RPB3 interaction site [polypeptide binding]; other site 342610001749 RPB1 interaction site [polypeptide binding]; other site 342610001750 RPB11 interaction site [polypeptide binding]; other site 342610001751 RPB10 interaction site [polypeptide binding]; other site 342610001752 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 342610001753 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 342610001754 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 342610001755 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 342610001756 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 342610001757 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 342610001758 unknown domain/DNA-directed RNA polymerase subunit A'' fusion protein; Provisional; Region: PRK14897 342610001759 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 342610001760 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 342610001761 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 342610001762 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 342610001763 DNA binding site [nucleotide binding] 342610001764 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 342610001765 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 342610001766 S17 interaction site [polypeptide binding]; other site 342610001767 S8 interaction site; other site 342610001768 16S rRNA interaction site [nucleotide binding]; other site 342610001769 streptomycin interaction site [chemical binding]; other site 342610001770 23S rRNA interaction site [nucleotide binding]; other site 342610001771 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 342610001772 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 342610001773 elongation factor G; Reviewed; Region: PRK00007 342610001774 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 342610001775 G1 box; other site 342610001776 putative GEF interaction site [polypeptide binding]; other site 342610001777 GTP/Mg2+ binding site [chemical binding]; other site 342610001778 Switch I region; other site 342610001779 G2 box; other site 342610001780 G3 box; other site 342610001781 Switch II region; other site 342610001782 G4 box; other site 342610001783 G5 box; other site 342610001784 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 342610001785 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 342610001786 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 342610001787 elongation factor Tu; Reviewed; Region: PRK00049 342610001788 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 342610001789 G1 box; other site 342610001790 GEF interaction site [polypeptide binding]; other site 342610001791 GTP/Mg2+ binding site [chemical binding]; other site 342610001792 Switch I region; other site 342610001793 G2 box; other site 342610001794 G3 box; other site 342610001795 Switch II region; other site 342610001796 G4 box; other site 342610001797 G5 box; other site 342610001798 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 342610001799 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 342610001800 Antibiotic Binding Site [chemical binding]; other site 342610001801 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 342610001802 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 342610001803 dimer interface [polypeptide binding]; other site 342610001804 putative CheW interface [polypeptide binding]; other site 342610001805 hypothetical protein; Provisional; Region: PRK11568 342610001806 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 342610001807 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl14656 342610001808 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 342610001809 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 342610001810 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 342610001811 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 342610001812 Sulfate transporter family; Region: Sulfate_transp; cl15842 342610001813 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 342610001814 Sulfate transporter family; Region: Sulfate_transp; cl15842 342610001815 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 342610001816 Protein of unknown function (DUF3545); Region: DUF3545; pfam12065 342610001817 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 342610001818 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 342610001819 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610001820 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 342610001821 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 342610001822 MarC family integral membrane protein; Region: MarC; cl00919 342610001823 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 342610001824 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 342610001825 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610001826 metal binding site [ion binding]; metal-binding site 342610001827 active site 342610001828 I-site; other site 342610001829 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 342610001830 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 342610001831 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 342610001832 catalytic residue [active] 342610001833 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 342610001834 ATP binding site [chemical binding]; other site 342610001835 putative Mg++ binding site [ion binding]; other site 342610001836 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 342610001837 nucleotide binding region [chemical binding]; other site 342610001838 ATP-binding site [chemical binding]; other site 342610001839 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 342610001840 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 342610001841 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 342610001842 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 342610001843 Protein export membrane protein; Region: SecD_SecF; cl14618 342610001844 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 342610001845 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 342610001846 C-terminal domain interface [polypeptide binding]; other site 342610001847 GSH binding site (G-site) [chemical binding]; other site 342610001848 dimer interface [polypeptide binding]; other site 342610001849 Protein of unknown function (DUF1244); Region: DUF1244; cl01385 342610001850 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 342610001851 CoenzymeA binding site [chemical binding]; other site 342610001852 subunit interaction site [polypeptide binding]; other site 342610001853 PHB binding site; other site 342610001854 Protein of unknown function, DUF; Region: DUF413; cl10479 342610001855 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06466 342610001856 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 342610001857 PYR/PP interface [polypeptide binding]; other site 342610001858 dimer interface [polypeptide binding]; other site 342610001859 TPP binding site [chemical binding]; other site 342610001860 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 342610001861 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 342610001862 TPP-binding site [chemical binding]; other site 342610001863 dimer interface [polypeptide binding]; other site 342610001864 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 342610001865 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 342610001866 putative valine binding site [chemical binding]; other site 342610001867 dimer interface [polypeptide binding]; other site 342610001868 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 342610001869 thymidine kinase; Provisional; Region: PRK04296 342610001870 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610001871 metal binding site [ion binding]; metal-binding site 342610001872 active site 342610001873 I-site; other site 342610001874 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 342610001875 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 342610001876 Transcriptional regulators [Transcription]; Region: GntR; COG1802 342610001877 DNA-binding site [nucleotide binding]; DNA binding site 342610001878 FCD domain; Region: FCD; cl11656 342610001879 Benzoate membrane transport protein; Region: BenE; pfam03594 342610001880 benzoate transporter; Region: benE; TIGR00843 342610001881 bile acid transporter; Region: bass; TIGR00841 342610001882 Membrane transport protein; Region: Mem_trans; cl09117 342610001883 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 342610001884 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl15306 342610001885 substrate binding pocket [chemical binding]; other site 342610001886 membrane-bound complex binding site; other site 342610001887 hinge residues; other site 342610001888 short chain dehydrogenase; Provisional; Region: PRK08251 342610001889 classical (c) SDR, subgroup 6; Region: SDR_c6; cd05350 342610001890 putative NAD(P) binding site [chemical binding]; other site 342610001891 active site 342610001892 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 342610001893 catalytic core [active] 342610001894 Predicted aminoglycoside phosphotransferase [General function prediction only]; Region: COG3173 342610001895 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 342610001896 putative active site [active] 342610001897 putative substrate binding site [chemical binding]; other site 342610001898 ATP binding site [chemical binding]; other site 342610001899 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 342610001900 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 342610001901 active site 342610001902 Transcriptional regulator [Transcription]; Region: LysR; COG0583 342610001903 Helix-turn-helix domains; Region: HTH; cl00088 342610001904 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 342610001905 substrate binding pocket [chemical binding]; other site 342610001906 dimerization interface [polypeptide binding]; other site 342610001907 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 342610001908 Peptidase S8 family domain in ProteinaseK-like proteins; Region: Peptidases_S8_PCSK9_ProteinaseK_like; cd04077 342610001909 calcium binding site 2 [ion binding]; other site 342610001910 active site 342610001911 catalytic triad [active] 342610001912 calcium binding site 1 [ion binding]; other site 342610001913 Cadherin repeat-like domain; Region: CA_like; cl15786 342610001914 Alpha-L-rhamnosidase N-terminal domain; Region: Bac_rhamnosid_N; pfam08531 342610001915 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 342610001916 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 342610001917 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 342610001918 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 342610001919 dimer interface [polypeptide binding]; other site 342610001920 phosphorylation site [posttranslational modification] 342610001921 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 342610001922 ATP binding site [chemical binding]; other site 342610001923 Mg2+ binding site [ion binding]; other site 342610001924 G-X-G motif; other site 342610001925 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 342610001926 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 342610001927 active site 342610001928 phosphorylation site [posttranslational modification] 342610001929 intermolecular recognition site; other site 342610001930 dimerization interface [polypeptide binding]; other site 342610001931 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 342610001932 DNA binding site [nucleotide binding] 342610001933 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 342610001934 MgtE intracellular N domain; Region: MgtE_N; cl15244 342610001935 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 342610001936 Divalent cation transporter; Region: MgtE; cl00786 342610001937 galactokinase; Provisional; Region: PRK05101 342610001938 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 342610001939 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 342610001940 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 342610001941 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 342610001942 dimer interface [polypeptide binding]; other site 342610001943 active site 342610001944 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 342610001945 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 342610001946 NAD(P) binding site [chemical binding]; other site 342610001947 catalytic residues [active] 342610001948 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 342610001949 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 342610001950 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 342610001951 inhibitor-cofactor binding pocket; inhibition site 342610001952 pyridoxal 5'-phosphate binding site [chemical binding]; other site 342610001953 catalytic residue [active] 342610001954 HDOD domain; Region: HDOD; pfam08668 342610001955 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 342610001956 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 342610001957 glutamine binding [chemical binding]; other site 342610001958 catalytic triad [active] 342610001959 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 342610001960 Ligand binding site [chemical binding]; other site 342610001961 Electron transfer flavoprotein domain; Region: ETF; pfam01012 342610001962 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 342610001963 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 342610001964 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 342610001965 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 342610001966 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 342610001967 active site 342610001968 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 342610001969 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 342610001970 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 342610001971 SurA N-terminal domain; Region: SurA_N_3; cl07813 342610001972 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610001973 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 342610001974 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 342610001975 active site 342610001976 HIGH motif; other site 342610001977 dimer interface [polypeptide binding]; other site 342610001978 KMSKS motif; other site 342610001979 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 342610001980 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 342610001981 substrate binding site [chemical binding]; other site 342610001982 hexamer interface [polypeptide binding]; other site 342610001983 metal binding site [ion binding]; metal-binding site 342610001984 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 342610001985 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 342610001986 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 342610001987 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DamX; COG3266 342610001988 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 342610001989 active site 342610001990 dimer interface [polypeptide binding]; other site 342610001991 metal binding site [ion binding]; metal-binding site 342610001992 shikimate kinase; Reviewed; Region: aroK; PRK00131 342610001993 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 342610001994 ADP binding site [chemical binding]; other site 342610001995 magnesium binding site [ion binding]; other site 342610001996 putative shikimate binding site; other site 342610001997 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 342610001998 Secretin and TonB N terminus short domain; Region: STN; cl06624 342610001999 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 342610002000 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 342610002001 Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilP; COG3168 342610002002 Pilus assembly protein, PilP; Region: PilP; pfam04351 342610002003 Pilus assembly protein, PilO; Region: PilO; cl01234 342610002004 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 342610002005 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 342610002006 Competence protein A; Region: Competence_A; pfam11104 342610002007 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 342610002008 active site 342610002009 DNA binding site [nucleotide binding] 342610002010 Int/Topo IB signature motif; other site 342610002011 Protein of unknown function (DUF4238); Region: DUF4238; pfam14022 342610002012 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 342610002013 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 342610002014 non-specific DNA binding site [nucleotide binding]; other site 342610002015 salt bridge; other site 342610002016 sequence-specific DNA binding site [nucleotide binding]; other site 342610002017 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 342610002018 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 342610002019 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 342610002020 HNH endonuclease; Region: HNH_3; pfam13392 342610002021 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; cl15276 342610002022 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 342610002023 Phage-related protein [Function unknown]; Region: COG4695; cl01923 342610002024 phage portal protein, PBSX family; Region: portal_PBSX; TIGR01540 342610002025 terminase ATPase subunit; Provisional; Region: P; PHA02535 342610002026 Helix-turn-helix domains; Region: HTH; cl00088 342610002027 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 342610002028 Phage capsid scaffolding protein (GPO) serine peptidase; Region: Phage_GPO; cl15838 342610002029 Phage major capsid protein, P2 family; Region: Phage_cap_P2; cl04947 342610002030 terminase endonuclease subunit; Provisional; Region: M; PHA02537 342610002031 Phage small terminase subunit; Region: Phage_term_smal; pfam05944 342610002032 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 342610002033 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 342610002034 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 342610002035 Protein of unknown function (DUF2586); Region: DUF2586; pfam10758 342610002036 Protein of unknown function (DUF2597); Region: DUF2597; pfam10772 342610002037 Protein of unknown function (DUF2765); Region: DUF2765; pfam10963 342610002038 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 342610002039 Protein of unknown function (DUF2590); Region: DUF2590; pfam10761 342610002040 Baseplate J-like protein; Region: Baseplate_J; cl01294 342610002041 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 342610002042 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 342610002043 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 342610002044 Transglycosylase; Region: Transgly; cl07896 342610002045 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 342610002046 malate dehydrogenase; Provisional; Region: PRK13529 342610002047 Malic enzyme, N-terminal domain; Region: malic; pfam00390 342610002048 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 342610002049 NAD(P) binding site [chemical binding]; other site 342610002050 Protein of unknown function DUF3258; Region: DUF3258; pfam11646 342610002051 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 342610002052 active site 342610002053 Int/Topo IB signature motif; other site 342610002054 DNA binding site [nucleotide binding] 342610002055 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 342610002056 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 342610002057 cofactor binding site; other site 342610002058 DNA binding site [nucleotide binding] 342610002059 substrate interaction site [chemical binding]; other site 342610002060 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 342610002061 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 342610002062 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 342610002063 Walker A motif; other site 342610002064 ATP binding site [chemical binding]; other site 342610002065 Walker B motif; other site 342610002066 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 342610002067 Walker A motif; other site 342610002068 ATP binding site [chemical binding]; other site 342610002069 Walker B motif; other site 342610002070 arginine finger; other site 342610002071 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 342610002072 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 342610002073 active site 342610002074 DNA binding site [nucleotide binding] 342610002075 Int/Topo IB signature motif; other site 342610002076 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 342610002077 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610002078 ATP-dependent DNA helicase Rep; Provisional; Region: PRK10919 342610002079 Family description; Region: UvrD_C_2; cl15862 342610002080 AAA domain; Region: AAA_21; pfam13304 342610002081 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 342610002082 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 342610002083 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 342610002084 putative active site [active] 342610002085 heme pocket [chemical binding]; other site 342610002086 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 342610002087 dimer interface [polypeptide binding]; other site 342610002088 phosphorylation site [posttranslational modification] 342610002089 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 342610002090 ATP binding site [chemical binding]; other site 342610002091 Mg2+ binding site [ion binding]; other site 342610002092 G-X-G motif; other site 342610002093 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 342610002094 Helix-turn-helix domains; Region: HTH; cl00088 342610002095 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 342610002096 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 342610002097 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 342610002098 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 342610002099 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 342610002100 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 342610002101 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 342610002102 catalytic residues [active] 342610002103 OsmC-like protein; Region: OsmC; cl00767 342610002104 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 342610002105 Helix-turn-helix domains; Region: HTH; cl00088 342610002106 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 342610002107 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 342610002108 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 342610002109 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 342610002110 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 342610002111 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 342610002112 putative substrate translocation pore; other site 342610002113 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 342610002114 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 342610002115 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 342610002116 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 342610002117 dimer interface [polypeptide binding]; other site 342610002118 active site 342610002119 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 342610002120 catalytic residues [active] 342610002121 substrate binding site [chemical binding]; other site 342610002122 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 342610002123 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 342610002124 Predicted membrane protein (DUF2061); Region: DUF2061; cl01257 342610002125 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610002126 AAA domain; Region: AAA_28; pfam13521 342610002127 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 342610002128 Kelch motif; Region: Kelch_1; cl02701 342610002129 Kelch motif; Region: Kelch_1; cl02701 342610002130 Kelch motif; Region: Kelch_1; cl02701 342610002131 Kelch-like protein; Provisional; Region: PHA02790 342610002132 Kelch motif; Region: Kelch_1; cl02701 342610002133 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 342610002134 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 342610002135 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 342610002136 catalytic residue [active] 342610002137 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 342610002138 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610002139 metal binding site [ion binding]; metal-binding site 342610002140 active site 342610002141 I-site; other site 342610002142 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 342610002143 MAPEG family; Region: MAPEG; cl09190 342610002144 Mechanosensitive ion channel; Region: MS_channel; pfam00924 342610002145 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 342610002146 Isocitrate dehydrogenase kinase/phosphatase (AceK); Region: AceK; cl01891 342610002147 Predicted ATPase [General function prediction only]; Region: COG3899 342610002148 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610002149 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 342610002150 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 342610002151 DNA binding residues [nucleotide binding] 342610002152 dimerization interface [polypeptide binding]; other site 342610002153 Domain of unknown function (DUF4405); Region: DUF4405; pfam14358 342610002154 Sensors of blue-light using FAD; Region: BLUF; cl04855 342610002155 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 342610002156 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 342610002157 dimer interface [polypeptide binding]; other site 342610002158 phosphorylation site [posttranslational modification] 342610002159 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 342610002160 ATP binding site [chemical binding]; other site 342610002161 Mg2+ binding site [ion binding]; other site 342610002162 G-X-G motif; other site 342610002163 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 342610002164 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 342610002165 heme binding pocket [chemical binding]; other site 342610002166 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 342610002167 domain interactions; other site 342610002168 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610002169 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610002170 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 342610002171 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 342610002172 binding surface 342610002173 TPR motif; other site 342610002174 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 342610002175 TPR motif; other site 342610002176 binding surface 342610002177 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 342610002178 Sulfotransferase family; Region: Sulfotransfer_3; cl14559 342610002179 short chain dehydrogenase; Provisional; Region: PRK12937 342610002180 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 342610002181 NADP binding site [chemical binding]; other site 342610002182 homodimer interface [polypeptide binding]; other site 342610002183 active site 342610002184 substrate binding site [chemical binding]; other site 342610002185 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 342610002186 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 342610002187 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 342610002188 DctM-like transporters; Region: DctM; pfam06808 342610002189 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 342610002190 Cupin domain; Region: Cupin_2; cl09118 342610002191 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 342610002192 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610002193 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610002194 EamA-like transporter family; Region: EamA; cl01037 342610002195 DNA topoisomerase III; Provisional; Region: PRK07726 342610002196 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 342610002197 active site 342610002198 putative interdomain interaction site [polypeptide binding]; other site 342610002199 putative metal-binding site [ion binding]; other site 342610002200 putative nucleotide binding site [chemical binding]; other site 342610002201 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 342610002202 domain I; other site 342610002203 DNA binding groove [nucleotide binding] 342610002204 phosphate binding site [ion binding]; other site 342610002205 domain II; other site 342610002206 domain III; other site 342610002207 nucleotide binding site [chemical binding]; other site 342610002208 catalytic site [active] 342610002209 domain IV; other site 342610002210 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 342610002211 active site 342610002212 metal binding site [ion binding]; metal-binding site 342610002213 Sodium:solute symporter family; Region: SSF; cl00456 342610002214 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 342610002215 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 342610002216 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 342610002217 putative chaperone; Provisional; Region: PRK11678 342610002218 YHYH protein; Region: YHYH; pfam14240 342610002219 YHYH protein; Region: YHYH; pfam14240 342610002220 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 342610002221 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 342610002222 active site 342610002223 metal binding site [ion binding]; metal-binding site 342610002224 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 342610002225 active site 342610002226 metal binding site [ion binding]; metal-binding site 342610002227 Secretin and TonB N terminus short domain; Region: STN; cl06624 342610002228 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 342610002229 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 342610002230 N-terminal plug; other site 342610002231 ligand-binding site [chemical binding]; other site 342610002232 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 342610002233 FecR protein; Region: FecR; pfam04773 342610002234 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 342610002235 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 342610002236 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 342610002237 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 342610002238 active site 342610002239 catalytic motif [active] 342610002240 Zn binding site [ion binding]; other site 342610002241 lipoprotein NlpI; Provisional; Region: PRK11189 342610002242 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 342610002243 binding surface 342610002244 TPR motif; other site 342610002245 Quinolinate synthetase A protein; Region: NadA; cl00420 342610002246 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 342610002247 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 342610002248 motif II; other site 342610002249 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 342610002250 Sulfatase; Region: Sulfatase; cl10460 342610002251 Transcriptional regulator [Transcription]; Region: IclR; COG1414 342610002252 Helix-turn-helix domains; Region: HTH; cl00088 342610002253 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 342610002254 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 342610002255 putative NAD(P) binding site [chemical binding]; other site 342610002256 catalytic Zn binding site [ion binding]; other site 342610002257 structural Zn binding site [ion binding]; other site 342610002258 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 342610002259 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 342610002260 active site 342610002261 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 342610002262 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 342610002263 active site 342610002264 catalytic tetrad [active] 342610002265 SAF domain; Region: SAF; cl00555 342610002266 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 342610002267 Altronate dehydratase [Carbohydrate transport and metabolism]; Region: UxaA; COG2721 342610002268 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 342610002269 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 342610002270 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610002271 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610002272 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 342610002273 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 342610002274 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; cl15381 342610002275 Beta-agarase, member of glycosyl hydrolase family 16; Region: GH16_beta_agarase; cd02178 342610002276 calcium binding site [ion binding]; other site 342610002277 active site 342610002278 catalytic residues [active] 342610002279 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610002280 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 342610002281 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610002282 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610002283 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610002284 Glycosyl hydrolase family 43, includes arabinoxylan arabinofuranohydrolase, beta-xylosidase, endo-1,4-beta-xylanase, alpha-L-arabinofuranosidase; Region: GH43_AXH_like; cd08990 342610002285 substrate binding site [chemical binding]; other site 342610002286 active site 342610002287 Carbohydrate Binding Module 6 (CBM6); many are appended to glycoside hydrolase (GH) family 11 and GH43 xylanase domains; Region: CBM6_xylanase-like; cd04084 342610002288 metal binding site [ion binding]; metal-binding site 342610002289 ligand binding site [chemical binding]; other site 342610002290 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 342610002291 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 342610002292 active site 342610002293 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 342610002294 Cytochrome c; Region: Cytochrom_C; cl11414 342610002295 Protein of unknown function (DUF1549); Region: PSCyt2; pfam07583 342610002296 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 342610002297 Protein of unknown function (DUF1553); Region: PSD1; pfam07587 342610002298 Cytochrome c; Region: Cytochrom_C; cl11414 342610002299 Cupin domain; Region: Cupin_2; cl09118 342610002300 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 342610002301 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610002302 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610002303 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 342610002304 Sulfatase; Region: Sulfatase; cl10460 342610002305 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 342610002306 Sulfatase; Region: Sulfatase; cl10460 342610002307 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 342610002308 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 342610002309 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 342610002310 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; cl15381 342610002311 Beta galactosidase small chain; Region: Bgal_small_N; cl03787 342610002312 Domain of unknown function (DUF718); Region: DUF718; cl01281 342610002313 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 342610002314 Beta-agarase, member of glycosyl hydrolase family 16; Region: GH16_beta_agarase; cd02178 342610002315 calcium binding site [ion binding]; other site 342610002316 active site 342610002317 catalytic residues [active] 342610002318 Probable beta-xylosidase; Provisional; Region: PLN03080 342610002319 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 342610002320 Fibronectin type III-like domain; Region: Fn3-like; cl15273 342610002321 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 342610002322 Sulfatase; Region: Sulfatase; cl10460 342610002323 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 342610002324 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 342610002325 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610002326 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610002327 SGNH_hydrolase subfamily. SGNH hydrolases are 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...; Region: SGNH_hydrolase_like_2; cd01834 342610002328 active site 342610002329 catalytic triad [active] 342610002330 oxyanion hole [active] 342610002331 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 342610002332 Sulfatase; Region: Sulfatase; cl10460 342610002333 Domain of unknown function (DUF303); Region: DUF303; pfam03629 342610002334 Domain of unknown function (DUF303); Region: DUF303; pfam03629 342610002335 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 342610002336 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 342610002337 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 342610002338 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; cl15381 342610002339 Protein of unknown function (DUF4038); Region: DUF4038; pfam13204 342610002340 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 342610002341 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 342610002342 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 342610002343 Sodium:solute symporter family; Region: SSF; cl00456 342610002344 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 342610002345 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 342610002346 substrate binding site [chemical binding]; other site 342610002347 ATP binding site [chemical binding]; other site 342610002348 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 342610002349 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 342610002350 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 342610002351 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 342610002352 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 342610002353 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 342610002354 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 342610002355 Transposase; Region: DEDD_Tnp_IS110; pfam01548 342610002356 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 342610002357 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 342610002358 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 342610002359 inhibitor binding site; inhibition site 342610002360 active site 342610002361 Beta-agarase, member of glycosyl hydrolase family 16; Region: GH16_beta_agarase; cd02178 342610002362 calcium binding site [ion binding]; other site 342610002363 active site 342610002364 catalytic residues [active] 342610002365 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 342610002366 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 342610002367 iron-sulfur cluster [ion binding]; other site 342610002368 [2Fe-2S] cluster binding site [ion binding]; other site 342610002369 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 342610002370 alpha subunit interface [polypeptide binding]; other site 342610002371 active site 342610002372 substrate binding site [chemical binding]; other site 342610002373 Fe binding site [ion binding]; other site 342610002374 Transcriptional regulators [Transcription]; Region: FadR; COG2186 342610002375 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 342610002376 DNA-binding site [nucleotide binding]; DNA binding site 342610002377 FCD domain; Region: FCD; cl11656 342610002378 Transcriptional regulator [Transcription]; Region: LysR; COG0583 342610002379 Helix-turn-helix domains; Region: HTH; cl00088 342610002380 The C-terminal substsrate binding domain of NodD family of LysR-type transcriptional regulators that regulates the expression of nodulation (nod) genes; contains the type 2 periplasmic binding fold; Region: PBP2_NodD; cd08462 342610002381 putative substrate binding pocket [chemical binding]; other site 342610002382 putative dimerization interface [polypeptide binding]; other site 342610002383 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 342610002384 N-terminal domain of 2,4,5-trihydroxytoluene (THT) oxygenase; Region: THT_Oxygenase_N; cd07267 342610002385 The C-terminal domain of 2,4,5-Trihydroxytoluene (THT) oxygenase, which is an extradiol dioxygenease in the 2,4-dinitrotoluene (DNT) degradation pathway; Region: THT_oxygenase_C; cd07257 342610002386 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 342610002387 putative active site [active] 342610002388 putative metal binding site [ion binding]; other site 342610002389 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 342610002390 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 342610002391 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 342610002392 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 342610002393 NAD binding site [chemical binding]; other site 342610002394 catalytic Zn binding site [ion binding]; other site 342610002395 structural Zn binding site [ion binding]; other site 342610002396 Cupin domain; Region: Cupin_2; cl09118 342610002397 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 342610002398 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610002399 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 342610002400 iron-sulfur cluster [ion binding]; other site 342610002401 [2Fe-2S] cluster binding site [ion binding]; other site 342610002402 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 342610002403 hydrophobic ligand binding site; other site 342610002404 Transcriptional regulator [Transcription]; Region: LysR; COG0583 342610002405 Helix-turn-helix domains; Region: HTH; cl00088 342610002406 The C-terminal substsrate binding domain of NodD family of LysR-type transcriptional regulators that regulates the expression of nodulation (nod) genes; contains the type 2 periplasmic binding fold; Region: PBP2_NodD; cd08462 342610002407 putative substrate binding pocket [chemical binding]; other site 342610002408 putative dimerization interface [polypeptide binding]; other site 342610002409 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 342610002410 Putative cyclase; Region: Cyclase; cl00814 342610002411 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 342610002412 C-terminal domain of Burkholderia sp. NF100 MhqB and similar proteins; MhqB is a type I extradiol dioxygenase involved in the catabolism of methylhydroquinone, an intermediate in the degradation of fenitrothion; Region: MhqB_like_C; cd08360 342610002413 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 342610002414 putative active site [active] 342610002415 putative metal binding site [ion binding]; other site 342610002416 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 342610002417 iron-sulfur cluster [ion binding]; other site 342610002418 [2Fe-2S] cluster binding site [ion binding]; other site 342610002419 hypothetical protein; Provisional; Region: PRK06847 342610002420 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610002421 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 342610002422 Transposase; Region: DEDD_Tnp_IS110; pfam01548 342610002423 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 342610002424 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 342610002425 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610002426 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610002427 Transcriptional regulator [Transcription]; Region: LysR; COG0583 342610002428 Helix-turn-helix domains; Region: HTH; cl00088 342610002429 The C-terminal substsrate binding domain of NodD family of LysR-type transcriptional regulators that regulates the expression of nodulation (nod) genes; contains the type 2 periplasmic binding fold; Region: PBP2_NodD; cd08462 342610002430 putative substrate binding pocket [chemical binding]; other site 342610002431 putative dimerization interface [polypeptide binding]; other site 342610002432 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 342610002433 iron-sulfur cluster [ion binding]; other site 342610002434 [2Fe-2S] cluster binding site [ion binding]; other site 342610002435 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 342610002436 hydrophobic ligand binding site; other site 342610002437 DoxX; Region: DoxX; cl00976 342610002438 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 342610002439 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 342610002440 FMN-binding pocket [chemical binding]; other site 342610002441 flavin binding motif; other site 342610002442 phosphate binding motif [ion binding]; other site 342610002443 beta-alpha-beta structure motif; other site 342610002444 NAD binding pocket [chemical binding]; other site 342610002445 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 342610002446 catalytic loop [active] 342610002447 iron binding site [ion binding]; other site 342610002448 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 342610002449 Sulfatase; Region: Sulfatase; cl10460 342610002450 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 342610002451 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 342610002452 FAD binding pocket [chemical binding]; other site 342610002453 FAD binding motif [chemical binding]; other site 342610002454 phosphate binding motif [ion binding]; other site 342610002455 NAD binding pocket [chemical binding]; other site 342610002456 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 342610002457 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 342610002458 C-terminal domain interface [polypeptide binding]; other site 342610002459 GSH binding site (G-site) [chemical binding]; other site 342610002460 dimer interface [polypeptide binding]; other site 342610002461 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 342610002462 dimer interface [polypeptide binding]; other site 342610002463 N-terminal domain interface [polypeptide binding]; other site 342610002464 substrate binding pocket (H-site) [chemical binding]; other site 342610002465 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 342610002466 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 342610002467 substrate binding pocket [chemical binding]; other site 342610002468 catalytic triad [active] 342610002469 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 342610002470 Major Facilitator Superfamily; Region: MFS_1; pfam07690 342610002471 putative substrate translocation pore; other site 342610002472 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 342610002473 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 342610002474 active site 342610002475 catalytic residues [active] 342610002476 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 342610002477 Sulfatase; Region: Sulfatase; cl10460 342610002478 Adenovirus IVa2 protein; Region: Adeno_IVa2; pfam02456 342610002479 YrhK-like protein; Region: YrhK; pfam14145 342610002480 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 342610002481 Beta-galactosidase; Region: Glyco_hydro_42; cl03154 342610002482 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 342610002483 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 342610002484 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 342610002485 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 342610002486 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610002487 Sulfatase; Region: Sulfatase; cl10460 342610002488 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 342610002489 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 342610002490 Sulfatase; Region: Sulfatase; cl10460 342610002491 Family description; Region: VCBS; pfam13517 342610002492 Family description; Region: VCBS; pfam13517 342610002493 Family description; Region: VCBS; pfam13517 342610002494 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 342610002495 Sulfatase; Region: Sulfatase; cl10460 342610002496 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 342610002497 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 342610002498 Transcriptional regulators [Transcription]; Region: FadR; COG2186 342610002499 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 342610002500 DNA-binding site [nucleotide binding]; DNA binding site 342610002501 FCD domain; Region: FCD; cl11656 342610002502 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 342610002503 Sulfatase; Region: Sulfatase; cl10460 342610002504 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 342610002505 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 342610002506 tetramerization interface [polypeptide binding]; other site 342610002507 NAD(P) binding site [chemical binding]; other site 342610002508 catalytic residues [active] 342610002509 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 342610002510 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 342610002511 active site pocket [active] 342610002512 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 342610002513 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 342610002514 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 342610002515 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 342610002516 active site 342610002517 intersubunit interface [polypeptide binding]; other site 342610002518 catalytic residue [active] 342610002519 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 342610002520 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 342610002521 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 342610002522 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 342610002523 DNA-binding site [nucleotide binding]; DNA binding site 342610002524 FCD domain; Region: FCD; cl11656 342610002525 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 342610002526 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 342610002527 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 342610002528 DNA binding residues [nucleotide binding] 342610002529 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 342610002530 classical (c) SDRs; Region: SDR_c; cd05233 342610002531 NAD(P) binding site [chemical binding]; other site 342610002532 active site 342610002533 Protein of unknown function (DUF2834); Region: DUF2834; pfam11196 342610002534 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 342610002535 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 342610002536 Family description; Region: VCBS; pfam13517 342610002537 Family description; Region: VCBS; pfam13517 342610002538 oxidoreductase; Provisional; Region: PRK06128 342610002539 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 342610002540 NAD binding site [chemical binding]; other site 342610002541 metal binding site [ion binding]; metal-binding site 342610002542 active site 342610002543 Protein of unknown function (DUF421); Region: DUF421; cl00990 342610002544 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 342610002545 YqcI/YcgG family; Region: YqcI_YcgG; cl01349 342610002546 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 342610002547 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 342610002548 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 342610002549 5-methyltetrahydropteroyltriglutamate--homocysteine methyltransferase; Provisional; Region: PRK08575 342610002550 substrate binding site [chemical binding]; other site 342610002551 THF binding site; other site 342610002552 zinc-binding site [ion binding]; other site 342610002553 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 342610002554 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 342610002555 FMN binding site [chemical binding]; other site 342610002556 substrate binding site [chemical binding]; other site 342610002557 putative catalytic residue [active] 342610002558 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 342610002559 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 342610002560 active site 342610002561 substrate binding site [chemical binding]; other site 342610002562 Mg2+ binding site [ion binding]; other site 342610002563 Lamin Tail Domain; Region: LTD; pfam00932 342610002564 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 342610002565 septum formation inhibitor; Reviewed; Region: minC; PRK00339 342610002566 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 342610002567 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 342610002568 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 342610002569 Switch I; other site 342610002570 Switch II; other site 342610002571 Septum formation topological specificity factor MinE; Region: MinE; cl00538 342610002572 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 342610002573 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 342610002574 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; cl01267 342610002575 putative hydrolase, CocE/NonD family; Region: /NonD; TIGR00976 342610002576 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; cl08482 342610002577 Family description; Region: VCBS; pfam13517 342610002578 Family description; Region: VCBS; pfam13517 342610002579 Family description; Region: VCBS; pfam13517 342610002580 Family description; Region: VCBS; pfam13517 342610002581 Family description; Region: VCBS; pfam13517 342610002582 Family description; Region: VCBS; pfam13517 342610002583 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610002584 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 342610002585 N-terminal plug; other site 342610002586 ligand-binding site [chemical binding]; other site 342610002587 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 342610002588 NMT1-like family; Region: NMT1_2; cl15260 342610002589 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 342610002590 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610002591 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 342610002592 N-terminal plug; other site 342610002593 ligand-binding site [chemical binding]; other site 342610002594 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 342610002595 FecR protein; Region: FecR; pfam04773 342610002596 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 342610002597 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 342610002598 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 342610002599 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 342610002600 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610002601 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 342610002602 N-terminal plug; other site 342610002603 ligand-binding site [chemical binding]; other site 342610002604 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 342610002605 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 342610002606 N-terminal plug; other site 342610002607 ligand-binding site [chemical binding]; other site 342610002608 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 342610002609 active site 342610002610 dimer interface [polypeptide binding]; other site 342610002611 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 342610002612 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 342610002613 active site residue [active] 342610002614 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 342610002615 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 342610002616 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 342610002617 active site 342610002618 phosphorylation site [posttranslational modification] 342610002619 intermolecular recognition site; other site 342610002620 dimerization interface [polypeptide binding]; other site 342610002621 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 342610002622 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 342610002623 tetrameric interface [polypeptide binding]; other site 342610002624 NAD binding site [chemical binding]; other site 342610002625 catalytic residues [active] 342610002626 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 342610002627 Isobutyryl-CoA dehydrogenase; Region: IBD; cd01162 342610002628 substrate binding pocket [chemical binding]; other site 342610002629 FAD binding site [chemical binding]; other site 342610002630 catalytic base [active] 342610002631 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 342610002632 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 342610002633 substrate binding site [chemical binding]; other site 342610002634 oxyanion hole (OAH) forming residues; other site 342610002635 trimer interface [polypeptide binding]; other site 342610002636 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 342610002637 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610002638 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 342610002639 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 342610002640 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610002641 NAD(P) binding site [chemical binding]; other site 342610002642 active site 342610002643 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 342610002644 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 342610002645 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 342610002646 putative active site [active] 342610002647 putative dimer interface [polypeptide binding]; other site 342610002648 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 342610002649 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 342610002650 Catalytic domain of Protein Kinases; Region: PKc; cd00180 342610002651 active site 342610002652 ATP binding site [chemical binding]; other site 342610002653 substrate binding site [chemical binding]; other site 342610002654 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 342610002655 activation loop (A-loop); other site 342610002656 Tetratricopeptide repeat; Region: TPR_12; pfam13424 342610002657 Tetratricopeptide repeat; Region: TPR_12; pfam13424 342610002658 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 342610002659 binding surface 342610002660 TPR motif; other site 342610002661 tetratricopeptide repeat protein; Provisional; Region: PRK11788 342610002662 RNA polymerase sigma factor, TIGR02999 family; Region: Sig-70_X6 342610002663 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 342610002664 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 342610002665 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 342610002666 active site residue [active] 342610002667 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 342610002668 EF-hand domain pair; Region: EF_hand_5; pfam13499 342610002669 Ca2+ binding site [ion binding]; other site 342610002670 Uncharacterized conserved protein [Function unknown]; Region: COG3268 342610002671 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610002672 NAD(P) binding site [chemical binding]; other site 342610002673 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610002674 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610002675 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610002676 pyruvate kinase; Provisional; Region: PRK05826 342610002677 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 342610002678 domain interfaces; other site 342610002679 active site 342610002680 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 342610002681 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 342610002682 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 342610002683 putative active site [active] 342610002684 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 342610002685 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 342610002686 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 342610002687 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 342610002688 putative active site [active] 342610002689 Dehydratase family; Region: ILVD_EDD; cl00340 342610002690 6-phosphogluconate dehydratase; Region: edd; TIGR01196 342610002691 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 342610002692 glucokinase, proteobacterial type; Region: glk; TIGR00749 342610002693 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 342610002694 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 342610002695 active site 342610002696 intersubunit interface [polypeptide binding]; other site 342610002697 catalytic residue [active] 342610002698 Flagellin N-methylase; Region: FliB; cl00497 342610002699 HopJ type III effector protein; Region: HopJ; pfam08888 342610002700 N-acetylglutamate synthase; Validated; Region: PRK05279 342610002701 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 342610002702 putative feedback inhibition sensing region; other site 342610002703 putative nucleotide binding site [chemical binding]; other site 342610002704 putative substrate binding site [chemical binding]; other site 342610002705 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 342610002706 argininosuccinate lyase; Provisional; Region: PRK04833 342610002707 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 342610002708 active sites [active] 342610002709 tetramer interface [polypeptide binding]; other site 342610002710 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 342610002711 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 342610002712 ANP binding site [chemical binding]; other site 342610002713 Substrate Binding Site II [chemical binding]; other site 342610002714 Substrate Binding Site I [chemical binding]; other site 342610002715 ornithine carbamoyltransferase; Provisional; Region: PRK14805 342610002716 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 342610002717 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610002718 AAK_NAGK-NC: N-Acetyl-L-glutamate kinase - noncyclic (NAGK-NC) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of microbial arginine biosynthesis using the acetylated, noncyclic route of...; Region: AAK_NAGK-NC; cd04249 342610002719 nucleotide binding site [chemical binding]; other site 342610002720 N-acetyl-L-glutamate binding site [chemical binding]; other site 342610002721 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 342610002722 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610002723 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 342610002724 acetylornithine deacetylase; Provisional; Region: PRK05111 342610002725 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 342610002726 metal binding site [ion binding]; metal-binding site 342610002727 putative dimer interface [polypeptide binding]; other site 342610002728 kelch-like protein; Provisional; Region: PHA03098 342610002729 kelch-like protein; Provisional; Region: PHA03098 342610002730 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 342610002731 active site 342610002732 dimer interfaces [polypeptide binding]; other site 342610002733 catalytic residues [active] 342610002734 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 342610002735 dimer interface [polypeptide binding]; other site 342610002736 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 342610002737 dimer interface [polypeptide binding]; other site 342610002738 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 342610002739 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 342610002740 active site 342610002741 phosphorylation site [posttranslational modification] 342610002742 intermolecular recognition site; other site 342610002743 dimerization interface [polypeptide binding]; other site 342610002744 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 342610002745 DNA binding site [nucleotide binding] 342610002746 two-component sensor protein; Provisional; Region: cpxA; PRK09470 342610002747 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 342610002748 dimerization interface [polypeptide binding]; other site 342610002749 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 342610002750 dimer interface [polypeptide binding]; other site 342610002751 phosphorylation site [posttranslational modification] 342610002752 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 342610002753 ATP binding site [chemical binding]; other site 342610002754 Mg2+ binding site [ion binding]; other site 342610002755 G-X-G motif; other site 342610002756 lysophospholipase L2; Provisional; Region: PRK10749 342610002757 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 342610002758 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 342610002759 FMN reductase; Validated; Region: fre; PRK08051 342610002760 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 342610002761 FAD binding pocket [chemical binding]; other site 342610002762 FAD binding motif [chemical binding]; other site 342610002763 phosphate binding motif [ion binding]; other site 342610002764 beta-alpha-beta structure motif; other site 342610002765 NAD binding pocket [chemical binding]; other site 342610002766 Phosphate-starvation-inducible E; Region: PsiE; cl01264 342610002767 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 342610002768 Sel1 repeat; Region: Sel1; cl02723 342610002769 ribonuclease R; Region: RNase_R; TIGR02063 342610002770 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 342610002771 RNB domain; Region: RNB; pfam00773 342610002772 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 342610002773 RNA binding site [nucleotide binding]; other site 342610002774 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 342610002775 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 342610002776 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 342610002777 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 342610002778 Helix-turn-helix domains; Region: HTH; cl00088 342610002779 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 342610002780 dimerization interface [polypeptide binding]; other site 342610002781 substrate binding pocket [chemical binding]; other site 342610002782 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 342610002783 AMP-binding enzyme; Region: AMP-binding; cl15778 342610002784 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 342610002785 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 342610002786 KOW motif; Region: KOW; cl00354 342610002787 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 342610002788 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 342610002789 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 342610002790 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 342610002791 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 342610002792 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 342610002793 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 342610002794 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 342610002795 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 342610002796 5S rRNA interface [nucleotide binding]; other site 342610002797 23S rRNA interface [nucleotide binding]; other site 342610002798 L5 interface [polypeptide binding]; other site 342610002799 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 342610002800 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 342610002801 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 342610002802 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 342610002803 23S rRNA binding site [nucleotide binding]; other site 342610002804 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 342610002805 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 342610002806 SecY translocase; Region: SecY; pfam00344 342610002807 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 342610002808 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 342610002809 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 342610002810 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 342610002811 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 342610002812 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 342610002813 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 342610002814 RNA binding surface [nucleotide binding]; other site 342610002815 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 342610002816 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 342610002817 alphaNTD homodimer interface [polypeptide binding]; other site 342610002818 alphaNTD - beta interaction site [polypeptide binding]; other site 342610002819 alphaNTD - beta' interaction site [polypeptide binding]; other site 342610002820 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 342610002821 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 342610002822 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 342610002823 dimer interface [polypeptide binding]; other site 342610002824 FMN binding site [chemical binding]; other site 342610002825 Arginase family; Region: Arginase; cl00306 342610002826 imidazolonepropionase; Validated; Region: PRK09356 342610002827 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 342610002828 active site 342610002829 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 342610002830 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 342610002831 DNA-binding site [nucleotide binding]; DNA binding site 342610002832 UTRA domain; Region: UTRA; cl01230 342610002833 urocanate hydratase; Provisional; Region: PRK05414 342610002834 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 342610002835 active sites [active] 342610002836 tetramer interface [polypeptide binding]; other site 342610002837 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 342610002838 active site 342610002839 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 342610002840 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 342610002841 G1 box; other site 342610002842 putative GEF interaction site [polypeptide binding]; other site 342610002843 GTP/Mg2+ binding site [chemical binding]; other site 342610002844 Switch I region; other site 342610002845 G2 box; other site 342610002846 G3 box; other site 342610002847 Switch II region; other site 342610002848 G4 box; other site 342610002849 G5 box; other site 342610002850 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 342610002851 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 342610002852 glutamine synthetase; Provisional; Region: glnA; PRK09469 342610002853 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 342610002854 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 342610002855 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 342610002856 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 342610002857 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 342610002858 dimer interface [polypeptide binding]; other site 342610002859 phosphorylation site [posttranslational modification] 342610002860 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 342610002861 ATP binding site [chemical binding]; other site 342610002862 Mg2+ binding site [ion binding]; other site 342610002863 G-X-G motif; other site 342610002864 nitrogen regulation protein NR(I); Provisional; Region: glnG; PRK10923 342610002865 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 342610002866 active site 342610002867 phosphorylation site [posttranslational modification] 342610002868 intermolecular recognition site; other site 342610002869 dimerization interface [polypeptide binding]; other site 342610002870 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 342610002871 Walker A motif; other site 342610002872 ATP binding site [chemical binding]; other site 342610002873 Walker B motif; other site 342610002874 arginine finger; other site 342610002875 Helix-turn-helix domains; Region: HTH; cl00088 342610002876 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 342610002877 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 342610002878 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 342610002879 Zn2+ binding site [ion binding]; other site 342610002880 Mg2+ binding site [ion binding]; other site 342610002881 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 342610002882 putative acyl-acceptor binding pocket; other site 342610002883 RNase E inhibitor protein; Provisional; Region: PRK11191 342610002884 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 342610002885 Endonuclease I; Region: Endonuclease_1; cl01003 342610002886 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 342610002887 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 342610002888 generic binding surface I; other site 342610002889 generic binding surface II; other site 342610002890 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 342610002891 putative catalytic site [active] 342610002892 putative metal binding site [ion binding]; other site 342610002893 putative phosphate binding site [ion binding]; other site 342610002894 Type II cohesin domain, interaction partner of dockerin; Region: Type_II_cohesin; cd08547 342610002895 dockerin binding interface; other site 342610002896 PEP-CTERM motif; Region: VPEP; cl15443 342610002897 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 342610002898 Peptidase S8 family domain, uncharacterized subfamily 3; Region: Peptidases_S8_3; cd04852 342610002899 active site 342610002900 catalytic triad [active] 342610002901 PA_subtilisin_like: Protease-associated domain containing subtilisin-like proteases. This group contains various PA domain-containing subtilisin-like proteases including melon cucumisin, Arabidopsis thaliana Ara12, a nodule specific serine protease from...; Region: PA_subtilisin_like; cd02120 342610002902 PA/protease or protease-like domain interface [polypeptide binding]; other site 342610002903 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 342610002904 catalytic residues [active] 342610002905 Fn3-like domain (DUF1034); Region: DUF1034; pfam06280 342610002906 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 342610002907 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 342610002908 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 342610002909 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 342610002910 Protein export membrane protein; Region: SecD_SecF; cl14618 342610002911 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 342610002912 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 342610002913 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 342610002914 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 342610002915 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 342610002916 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 342610002917 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 342610002918 DNA binding residues [nucleotide binding] 342610002919 DNA primase; Validated; Region: dnaG; PRK05667 342610002920 CHC2 zinc finger; Region: zf-CHC2; cl15369 342610002921 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 342610002922 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 342610002923 active site 342610002924 metal binding site [ion binding]; metal-binding site 342610002925 interdomain interaction site; other site 342610002926 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 342610002927 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; cl07879 342610002928 GatB domain; Region: GatB_Yqey; cl11497 342610002929 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 342610002930 UGMP family protein; Validated; Region: PRK09604 342610002931 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 342610002932 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 342610002933 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 342610002934 homooctamer interface [polypeptide binding]; other site 342610002935 active site 342610002936 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 342610002937 catalytic center binding site [active] 342610002938 ATP binding site [chemical binding]; other site 342610002939 Bacitracin resistance protein BacA; Region: BacA; cl00858 342610002940 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 342610002941 nucleotide binding site/active site [active] 342610002942 HIT family signature motif; other site 342610002943 catalytic residue [active] 342610002944 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610002945 metal binding site [ion binding]; metal-binding site 342610002946 active site 342610002947 I-site; other site 342610002948 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 342610002949 Nudix hydrolase homolog; Region: PLN02791 342610002950 HDOD domain; Region: HDOD; pfam08668 342610002951 Putative exonuclease, RdgC; Region: RdgC; cl01122 342610002952 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 342610002953 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 342610002954 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 342610002955 dimer interface [polypeptide binding]; other site 342610002956 phosphorylation site [posttranslational modification] 342610002957 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 342610002958 ATP binding site [chemical binding]; other site 342610002959 Mg2+ binding site [ion binding]; other site 342610002960 G-X-G motif; other site 342610002961 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 342610002962 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 342610002963 active site 342610002964 phosphorylation site [posttranslational modification] 342610002965 intermolecular recognition site; other site 342610002966 dimerization interface [polypeptide binding]; other site 342610002967 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 342610002968 DNA binding site [nucleotide binding] 342610002969 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 342610002970 phosphate regulon sensor protein; Provisional; Region: phoR; PRK11006 342610002971 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 342610002972 dimer interface [polypeptide binding]; other site 342610002973 phosphorylation site [posttranslational modification] 342610002974 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 342610002975 ATP binding site [chemical binding]; other site 342610002976 Mg2+ binding site [ion binding]; other site 342610002977 G-X-G motif; other site 342610002978 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610002979 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610002980 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 342610002981 Cytochrome c; Region: Cytochrom_C; cl11414 342610002982 Iron permease FTR1 family; Region: FTR1; cl00475 342610002983 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 342610002984 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 342610002985 N-terminal plug; other site 342610002986 ligand-binding site [chemical binding]; other site 342610002987 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 342610002988 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 342610002989 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 342610002990 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 342610002991 Gram-negative bacterial tonB protein; Region: TonB; cl10048 342610002992 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 342610002993 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 342610002994 binding surface 342610002995 TPR motif; other site 342610002996 peroxiredoxin; Region: AhpC; TIGR03137 342610002997 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 342610002998 dimer interface [polypeptide binding]; other site 342610002999 decamer (pentamer of dimers) interface [polypeptide binding]; other site 342610003000 catalytic triad [active] 342610003001 peroxidatic and resolving cysteines [active] 342610003002 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 342610003003 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 342610003004 catalytic residue [active] 342610003005 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 342610003006 catalytic residues [active] 342610003007 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 342610003008 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 342610003009 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 342610003010 Bacterial sugar transferase; Region: Bac_transf; cl00939 342610003011 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 342610003012 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 342610003013 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 342610003014 SLBB domain; Region: SLBB; pfam10531 342610003015 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 342610003016 Chain length determinant protein; Region: Wzz; cl15801 342610003017 Chain length determinant protein; Region: Wzz; cl15801 342610003018 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 342610003019 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610003020 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610003021 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 342610003022 TPR repeat; Region: TPR_11; pfam13414 342610003023 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 342610003024 O-Antigen ligase; Region: Wzy_C; cl04850 342610003025 biofilm formation regulator HmsP; Provisional; Region: PRK11829 342610003026 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 342610003027 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610003028 metal binding site [ion binding]; metal-binding site 342610003029 active site 342610003030 I-site; other site 342610003031 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 342610003032 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 342610003033 colanic acid exporter; Provisional; Region: PRK10459 342610003034 MatE; Region: MatE; cl10513 342610003035 OpgC protein; Region: OpgC_C; cl00792 342610003036 Acyltransferase family; Region: Acyl_transf_3; pfam01757 342610003037 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 342610003038 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 342610003039 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 342610003040 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 342610003041 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 342610003042 putative NAD(P) binding site [chemical binding]; other site 342610003043 active site 342610003044 putative substrate binding site [chemical binding]; other site 342610003045 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 342610003046 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 342610003047 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 342610003048 putative ADP-binding pocket [chemical binding]; other site 342610003049 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 342610003050 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 342610003051 putative ADP-binding pocket [chemical binding]; other site 342610003052 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 342610003053 active site 342610003054 OpgC protein; Region: OpgC_C; cl00792 342610003055 Acyltransferase family; Region: Acyl_transf_3; pfam01757 342610003056 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 342610003057 OpgC protein; Region: OpgC_C; cl00792 342610003058 Acyltransferase family; Region: Acyl_transf_3; pfam01757 342610003059 OpgC protein; Region: OpgC_C; cl00792 342610003060 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 342610003061 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 342610003062 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 342610003063 active site 342610003064 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 342610003065 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 342610003066 FeS/SAM binding site; other site 342610003067 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 342610003068 Sulfatase; Region: Sulfatase; cl10460 342610003069 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 342610003070 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 342610003071 tetramer interface [polypeptide binding]; other site 342610003072 heme binding pocket [chemical binding]; other site 342610003073 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 342610003074 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 342610003075 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 342610003076 Carbon starvation protein CstA; Region: CstA; pfam02554 342610003077 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 342610003078 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 342610003079 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 342610003080 N-terminal plug; other site 342610003081 ligand-binding site [chemical binding]; other site 342610003082 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 342610003083 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 342610003084 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 342610003085 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 342610003086 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 342610003087 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610003088 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 342610003089 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 342610003090 E3 interaction surface; other site 342610003091 lipoyl attachment site [posttranslational modification]; other site 342610003092 e3 binding domain; Region: E3_binding; pfam02817 342610003093 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 342610003094 2-oxoacid dehydrogenase subunit E1; Provisional; Region: PRK13012 342610003095 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 342610003096 dimer interface [polypeptide binding]; other site 342610003097 TPP-binding site [chemical binding]; other site 342610003098 Tannase and feruloyl esterase; Region: Tannase; pfam07519 342610003099 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610003100 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610003101 2-hydroxycarboxylate transporter family; Region: 2HCT; cl01386 342610003102 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 342610003103 Domain of unknown function (DUF4387); Region: DUF4387; pfam14330 342610003104 Transcriptional regulator [Transcription]; Region: LysR; COG0583 342610003105 Helix-turn-helix domains; Region: HTH; cl00088 342610003106 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 342610003107 dimerization interface [polypeptide binding]; other site 342610003108 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 342610003109 Helix-turn-helix domains; Region: HTH; cl00088 342610003110 fumarylacetoacetase; Region: fum_ac_acetase; TIGR01266 342610003111 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 342610003112 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 342610003113 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 342610003114 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 342610003115 Zn binding site [ion binding]; other site 342610003116 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 342610003117 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 342610003118 dimer interface [polypeptide binding]; other site 342610003119 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 342610003120 active site 342610003121 Fe binding site [ion binding]; other site 342610003122 Protein of unknown function (DUF1348); Region: DUF1348; pfam07080 342610003123 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 342610003124 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 342610003125 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 342610003126 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 342610003127 FAD binding pocket [chemical binding]; other site 342610003128 FAD binding motif [chemical binding]; other site 342610003129 phosphate binding motif [ion binding]; other site 342610003130 beta-alpha-beta structure motif; other site 342610003131 NAD binding pocket [chemical binding]; other site 342610003132 Heme binding pocket [chemical binding]; other site 342610003133 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 342610003134 catalytic loop [active] 342610003135 iron binding site [ion binding]; other site 342610003136 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 342610003137 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 342610003138 putative C-terminal domain interface [polypeptide binding]; other site 342610003139 putative GSH binding site (G-site) [chemical binding]; other site 342610003140 putative dimer interface [polypeptide binding]; other site 342610003141 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 342610003142 putative N-terminal domain interface [polypeptide binding]; other site 342610003143 putative dimer interface [polypeptide binding]; other site 342610003144 putative substrate binding pocket (H-site) [chemical binding]; other site 342610003145 Transcriptional regulator [Transcription]; Region: LysR; COG0583 342610003146 Helix-turn-helix domains; Region: HTH; cl00088 342610003147 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 342610003148 putative effector binding pocket; other site 342610003149 dimerization interface [polypeptide binding]; other site 342610003150 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 342610003151 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 342610003152 pyridoxal 5'-phosphate binding site [chemical binding]; other site 342610003153 homodimer interface [polypeptide binding]; other site 342610003154 catalytic residue [active] 342610003155 CobD/Cbib protein; Region: CobD_Cbib; cl00561 342610003156 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 342610003157 bifunctional RNase H/acid phosphatase; Provisional; Region: PRK07238 342610003158 catalytic core [active] 342610003159 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 342610003160 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 342610003161 cobalamin binding residues [chemical binding]; other site 342610003162 putative BtuC binding residues; other site 342610003163 dimer interface [polypeptide binding]; other site 342610003164 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610003165 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 342610003166 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 342610003167 homodimer interface [polypeptide binding]; other site 342610003168 Walker A motif; other site 342610003169 ATP binding site [chemical binding]; other site 342610003170 hydroxycobalamin binding site [chemical binding]; other site 342610003171 Walker B motif; other site 342610003172 cobyric acid synthase; Provisional; Region: PRK00784 342610003173 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610003174 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610003175 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 342610003176 catalytic triad [active] 342610003177 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 342610003178 catalytic core [active] 342610003179 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 342610003180 homotrimer interface [polypeptide binding]; other site 342610003181 Walker A motif; other site 342610003182 GTP binding site [chemical binding]; other site 342610003183 Walker B motif; other site 342610003184 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 342610003185 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 342610003186 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 342610003187 putative dimer interface [polypeptide binding]; other site 342610003188 active site pocket [active] 342610003189 putative cataytic base [active] 342610003190 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 342610003191 ABC-ATPase subunit interface; other site 342610003192 dimer interface [polypeptide binding]; other site 342610003193 putative PBP binding regions; other site 342610003194 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 342610003195 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 342610003196 Walker A/P-loop; other site 342610003197 ATP binding site [chemical binding]; other site 342610003198 Q-loop/lid; other site 342610003199 ABC transporter signature motif; other site 342610003200 Walker B; other site 342610003201 D-loop; other site 342610003202 H-loop/switch region; other site 342610003203 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 342610003204 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 342610003205 N-terminal plug; other site 342610003206 ligand-binding site [chemical binding]; other site 342610003207 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 342610003208 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 342610003209 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 342610003210 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 342610003211 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 342610003212 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 342610003213 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610003214 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 342610003215 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 342610003216 active site 342610003217 phosphorylation site [posttranslational modification] 342610003218 intermolecular recognition site; other site 342610003219 dimerization interface [polypeptide binding]; other site 342610003220 LytTr DNA-binding domain; Region: LytTR; cl04498 342610003221 Histidine kinase; Region: His_kinase; pfam06580 342610003222 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 342610003223 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 342610003224 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 342610003225 active site 342610003226 phosphorylation site [posttranslational modification] 342610003227 intermolecular recognition site; other site 342610003228 dimerization interface [polypeptide binding]; other site 342610003229 LytTr DNA-binding domain; Region: LytTR; cl04498 342610003230 glutathione synthetase; Provisional; Region: PRK05246 342610003231 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 342610003232 ATP-grasp domain; Region: ATP-grasp_4; cl03087 342610003233 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 342610003234 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 342610003235 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 342610003236 catalytic residues [active] 342610003237 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 342610003238 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610003239 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 342610003240 L-serine binding site [chemical binding]; other site 342610003241 ACT domain interface; other site 342610003242 PAS fold; Region: PAS_4; pfam08448 342610003243 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 342610003244 putative active site [active] 342610003245 heme pocket [chemical binding]; other site 342610003246 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 342610003247 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610003248 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 342610003249 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 342610003250 active site 342610003251 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 342610003252 active site 342610003253 hypothetical protein; Provisional; Region: PRK11239 342610003254 Protein of unknown function, DUF480; Region: DUF480; cl01209 342610003255 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 342610003256 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 342610003257 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 342610003258 active site 342610003259 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 342610003260 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 342610003261 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610003262 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 342610003263 exopolysaccharide/PEPCTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 342610003264 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610003265 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 342610003266 Chain length determinant protein; Region: Wzz; cl15801 342610003267 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 342610003268 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 342610003269 sugar transferase, PEP-CTERM system associated; Region: EpsB_2; TIGR03013 342610003270 Bacterial sugar transferase; Region: Bac_transf; cl00939 342610003271 polysaccharide deacetylase family protein, PEP-CTERM locus subfamily; Region: pepcterm_polyde; TIGR03006 342610003272 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases and Helicobacter pylori peptidoglycan deacetylase (HpPgdA); Region: CE4_PuuE_HpPgdA_like_2; cd10941 342610003273 putative active site [active] 342610003274 putative catalytic site [active] 342610003275 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; pfam09721 342610003276 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 342610003277 Protein of unknown function (DUF3485); Region: DUF3485; cl11827 342610003278 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 342610003279 OpgC protein; Region: OpgC_C; cl00792 342610003280 Acyltransferase family; Region: Acyl_transf_3; pfam01757 342610003281 Right handed beta helix region; Region: Beta_helix; pfam13229 342610003282 serine O-acetyltransferase; Region: cysE; TIGR01172 342610003283 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 342610003284 trimer interface [polypeptide binding]; other site 342610003285 active site 342610003286 substrate binding site [chemical binding]; other site 342610003287 CoA binding site [chemical binding]; other site 342610003288 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 342610003289 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 342610003290 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 342610003291 active site 342610003292 Sulfotransferase family; Region: Sulfotransfer_3; cl14559 342610003293 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 342610003294 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 342610003295 O-Antigen ligase; Region: Wzy_C; cl04850 342610003296 OpgC protein; Region: OpgC_C; cl00792 342610003297 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 342610003298 active site 342610003299 MatE; Region: MatE; cl10513 342610003300 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 342610003301 Sulfotransferase family; Region: Sulfotransfer_3; cl14559 342610003302 MatE; Region: MatE; cl10513 342610003303 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 342610003304 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 342610003305 Sulfotransferase family; Region: Sulfotransfer_3; cl14559 342610003306 This family is most closely related to the GT1 family of glycosyltransferases. WbnK in Shigella dysenteriae has been shown to be involved in the type 7 O-antigen biosynthesis; Region: GT1_WbnK_like; cd03807 342610003307 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 342610003308 putative ADP-binding pocket [chemical binding]; other site 342610003309 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 342610003310 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 342610003311 active site 342610003312 dimer interface [polypeptide binding]; other site 342610003313 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 342610003314 Ligand Binding Site [chemical binding]; other site 342610003315 Molecular Tunnel; other site 342610003316 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 342610003317 Putative catalytic domain of lipopolysaccharide biosynthesis protein WalW and its bacterial homologs; Region: CE4_WalW; cd10935 342610003318 putative active site [active] 342610003319 putative catalytic site [active] 342610003320 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 342610003321 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 342610003322 putative ADP-binding pocket [chemical binding]; other site 342610003323 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 342610003324 active site 342610003325 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 342610003326 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 342610003327 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 342610003328 binding surface 342610003329 TPR motif; other site 342610003330 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 342610003331 TPR motif; other site 342610003332 binding surface 342610003333 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 342610003334 binding surface 342610003335 TPR motif; other site 342610003336 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 342610003337 FAD binding domain; Region: FAD_binding_4; pfam01565 342610003338 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 342610003339 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 342610003340 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 342610003341 active site 342610003342 nucleophile elbow; other site 342610003343 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 342610003344 putative active site [active] 342610003345 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610003346 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 342610003347 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_HprK; cl00270 342610003348 active site 342610003349 metal-binding site [ion binding] 342610003350 nucleotide-binding site [chemical binding]; other site 342610003351 Malate synthase G (MSG), monomeric enzyme present in some bacteria. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate...; Region: malate_synt_G; cd00728 342610003352 active site 342610003353 Transcriptional regulator [Transcription]; Region: LysR; COG0583 342610003354 Helix-turn-helix domains; Region: HTH; cl00088 342610003355 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 342610003356 substrate binding pocket [chemical binding]; other site 342610003357 dimerization interface [polypeptide binding]; other site 342610003358 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 342610003359 tetramer interface [polypeptide binding]; other site 342610003360 active site 342610003361 Mg2+/Mn2+ binding site [ion binding]; other site 342610003362 Members of the ICL/PEPM_KPHMT enzyme superfamily catalyze the formation and cleavage of either P-C or C-C bonds. Typical members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate...; Region: ICL_KPHMT; cl00435 342610003363 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 342610003364 Alkaline phosphatase homologues; Region: alkPPc; smart00098 342610003365 active site 342610003366 dimer interface [polypeptide binding]; other site 342610003367 Rhomboid family; Region: Rhomboid; cl11446 342610003368 Circularly permuted ATP-grasp type 2; Region: CP_ATPgrasp_2; cl00503 342610003369 Protein of unknown function (DUF1190); Region: DUF1190; cl10031 342610003370 Translocation protein Sec62; Region: Sec62; cl02170 342610003371 Predicted membrane protein [Function unknown]; Region: COG3766 342610003372 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 342610003373 Protein of unknown function (DUF2491); Region: DUF2491; pfam10679 342610003374 Ion channel; Region: Ion_trans_2; cl11596 342610003375 PspA/IM30 family; Region: PspA_IM30; pfam04012 342610003376 Uncharacterized protein conserved in bacteria (DUF2170); Region: DUF2170; cl01551 342610003377 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 342610003378 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 342610003379 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 342610003380 tRNA-guanine transglycosylases, various specificities; Region: tgt_general; TIGR00449 342610003381 Preprotein translocase subunit; Region: YajC; cl00806 342610003382 SecD export protein N-terminal TM region; Region: SecD-TM1; cl08136 342610003383 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 342610003384 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 342610003385 Protein export membrane protein; Region: SecD_SecF; cl14618 342610003386 protein-export membrane protein SecF; Region: 3a0501s07; TIGR00966 342610003387 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 342610003388 Protein export membrane protein; Region: SecD_SecF; cl14618 342610003389 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 342610003390 active site 342610003391 dimerization interface [polypeptide binding]; other site 342610003392 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_1; cd08352 342610003393 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 342610003394 putative metal binding site [ion binding]; other site 342610003395 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 342610003396 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 342610003397 serine O-acetyltransferase; Region: cysE; TIGR01172 342610003398 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 342610003399 trimer interface [polypeptide binding]; other site 342610003400 active site 342610003401 substrate binding site [chemical binding]; other site 342610003402 CoA binding site [chemical binding]; other site 342610003403 Helix-turn-helix domains; Region: HTH; cl00088 342610003404 Rrf2 family protein; Region: rrf2_super; TIGR00738 342610003405 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 342610003406 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 342610003407 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 342610003408 catalytic residue [active] 342610003409 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 342610003410 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 342610003411 trimerization site [polypeptide binding]; other site 342610003412 active site 342610003413 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 342610003414 co-chaperone HscB; Provisional; Region: hscB; PRK05014 342610003415 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 342610003416 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 342610003417 chaperone protein HscA; Provisional; Region: hscA; PRK05183 342610003418 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 342610003419 catalytic loop [active] 342610003420 iron binding site [ion binding]; other site 342610003421 YebG protein; Region: YebG; cl01217 342610003422 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 342610003423 putative acyl-acceptor binding pocket; other site 342610003424 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 342610003425 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 342610003426 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 342610003427 putative active site [active] 342610003428 putative metal binding site [ion binding]; other site 342610003429 PII uridylyl-transferase; Provisional; Region: PRK05007 342610003430 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 342610003431 metal binding triad; other site 342610003432 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 342610003433 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 342610003434 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 342610003435 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 342610003436 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 342610003437 active site 342610003438 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 342610003439 rRNA interaction site [nucleotide binding]; other site 342610003440 S8 interaction site; other site 342610003441 putative laminin-1 binding site; other site 342610003442 elongation factor Ts; Provisional; Region: tsf; PRK09377 342610003443 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 342610003444 Elongation factor TS; Region: EF_TS; pfam00889 342610003445 Elongation factor TS; Region: EF_TS; pfam00889 342610003446 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 342610003447 putative nucleotide binding site [chemical binding]; other site 342610003448 uridine monophosphate binding site [chemical binding]; other site 342610003449 homohexameric interface [polypeptide binding]; other site 342610003450 ribosome recycling factor; Reviewed; Region: frr; PRK00083 342610003451 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 342610003452 hinge region; other site 342610003453 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 342610003454 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 342610003455 catalytic residue [active] 342610003456 putative FPP diphosphate binding site; other site 342610003457 putative FPP binding hydrophobic cleft; other site 342610003458 dimer interface [polypeptide binding]; other site 342610003459 putative IPP diphosphate binding site; other site 342610003460 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 342610003461 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 342610003462 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 342610003463 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 342610003464 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 342610003465 zinc metallopeptidase RseP; Provisional; Region: PRK10779 342610003466 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 342610003467 active site 342610003468 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 342610003469 protein binding site [polypeptide binding]; other site 342610003470 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 342610003471 protein binding site [polypeptide binding]; other site 342610003472 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 342610003473 putative substrate binding region [chemical binding]; other site 342610003474 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 342610003475 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 342610003476 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 342610003477 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 342610003478 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 342610003479 Surface antigen; Region: Bac_surface_Ag; cl03097 342610003480 periplasmic chaperone; Provisional; Region: PRK10780 342610003481 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 342610003482 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 342610003483 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 342610003484 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 342610003485 trimer interface [polypeptide binding]; other site 342610003486 active site 342610003487 UDP-GlcNAc binding site [chemical binding]; other site 342610003488 lipid binding site [chemical binding]; lipid-binding site 342610003489 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 342610003490 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 342610003491 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 342610003492 active site 342610003493 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 342610003494 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 342610003495 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 342610003496 RNA/DNA hybrid binding site [nucleotide binding]; other site 342610003497 active site 342610003498 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 342610003499 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 342610003500 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 342610003501 generic binding surface I; other site 342610003502 generic binding surface II; other site 342610003503 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 342610003504 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 342610003505 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 342610003506 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 342610003507 Ligand Binding Site [chemical binding]; other site 342610003508 TilS substrate binding domain; Region: TilS; pfam09179 342610003509 B3/4 domain; Region: B3_4; cl11458 342610003510 Lipase (class 3). 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...; Region: Lipase_3; cd00519 342610003511 active site flap/lid [active] 342610003512 nucleophilic elbow; other site 342610003513 catalytic triad [active] 342610003514 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 342610003515 active site 342610003516 phosphorylation site [posttranslational modification] 342610003517 intermolecular recognition site; other site 342610003518 dimerization interface [polypeptide binding]; other site 342610003519 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610003520 metal binding site [ion binding]; metal-binding site 342610003521 active site 342610003522 I-site; other site 342610003523 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 342610003524 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 342610003525 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 342610003526 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610003527 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 342610003528 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 342610003529 carboxyltransferase (CT) interaction site; other site 342610003530 biotinylation site [posttranslational modification]; other site 342610003531 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 342610003532 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 342610003533 oxyanion hole (OAH) forming residues; other site 342610003534 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 342610003535 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 342610003536 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610003537 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 342610003538 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 342610003539 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 342610003540 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 342610003541 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 342610003542 nucleophile elbow; other site 342610003543 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 342610003544 prolyl-tRNA synthetase; Provisional; Region: PRK09194 342610003545 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 342610003546 dimer interface [polypeptide binding]; other site 342610003547 motif 1; other site 342610003548 active site 342610003549 motif 2; other site 342610003550 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 342610003551 putative deacylase active site [active] 342610003552 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 342610003553 active site 342610003554 motif 3; other site 342610003555 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 342610003556 anticodon binding site; other site 342610003557 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 342610003558 homodimer interaction site [polypeptide binding]; other site 342610003559 cofactor binding site; other site 342610003560 phosphoserine phosphatase SerB; Region: serB; TIGR00338 342610003561 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 342610003562 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 342610003563 motif II; other site 342610003564 PilZ domain; Region: PilZ; cl01260 342610003565 PilZ domain; Region: PilZ; cl01260 342610003566 DNA repair protein RadA; Provisional; Region: PRK11823 342610003567 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 342610003568 Walker A motif/ATP binding site; other site 342610003569 ATP binding site [chemical binding]; other site 342610003570 Walker B motif; other site 342610003571 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 342610003572 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 342610003573 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 342610003574 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 342610003575 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610003576 metal binding site [ion binding]; metal-binding site 342610003577 active site 342610003578 I-site; other site 342610003579 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 342610003580 aconitate hydratase; Validated; Region: PRK09277 342610003581 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 342610003582 substrate binding site [chemical binding]; other site 342610003583 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 342610003584 ligand binding site [chemical binding]; other site 342610003585 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 342610003586 substrate binding site [chemical binding]; other site 342610003587 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 342610003588 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 342610003589 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 342610003590 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 342610003591 Helix-turn-helix domains; Region: HTH; cl00088 342610003592 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 342610003593 Protein of unknown function (DUF4079); Region: DUF4079; pfam13301 342610003594 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 342610003595 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 342610003596 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 342610003597 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 342610003598 D-pathway; other site 342610003599 Putative ubiquinol binding site [chemical binding]; other site 342610003600 Low-spin heme (heme b) binding site [chemical binding]; other site 342610003601 Putative water exit pathway; other site 342610003602 Binuclear center (heme o3/CuB) [ion binding]; other site 342610003603 K-pathway; other site 342610003604 Putative proton exit pathway; other site 342610003605 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 342610003606 Subunit I/III interface [polypeptide binding]; other site 342610003607 Subunit III/IV interface [polypeptide binding]; other site 342610003608 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 342610003609 UbiA prenyltransferase family; Region: UbiA; cl00337 342610003610 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 342610003611 PAS domain; Region: PAS_9; pfam13426 342610003612 putative active site [active] 342610003613 heme pocket [chemical binding]; other site 342610003614 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 342610003615 GAF domain; Region: GAF; cl15785 342610003616 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 342610003617 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 342610003618 heme pocket [chemical binding]; other site 342610003619 putative active site [active] 342610003620 GAF domain; Region: GAF_2; pfam13185 342610003621 GAF domain; Region: GAF; cl15785 342610003622 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 342610003623 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 342610003624 putative active site [active] 342610003625 heme pocket [chemical binding]; other site 342610003626 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 342610003627 dimer interface [polypeptide binding]; other site 342610003628 phosphorylation site [posttranslational modification] 342610003629 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 342610003630 ATP binding site [chemical binding]; other site 342610003631 Mg2+ binding site [ion binding]; other site 342610003632 G-X-G motif; other site 342610003633 Response regulator receiver domain; Region: Response_reg; pfam00072 342610003634 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 342610003635 active site 342610003636 phosphorylation site [posttranslational modification] 342610003637 intermolecular recognition site; other site 342610003638 dimerization interface [polypeptide binding]; other site 342610003639 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 342610003640 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 342610003641 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 342610003642 ABC transporter; Region: ABC_tran_2; pfam12848 342610003643 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 342610003644 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 342610003645 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 342610003646 metal binding site [ion binding]; metal-binding site 342610003647 dimer interface [polypeptide binding]; other site 342610003648 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 342610003649 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610003650 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 342610003651 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 342610003652 dimer interface [polypeptide binding]; other site 342610003653 active site 342610003654 glycine-pyridoxal phosphate binding site [chemical binding]; other site 342610003655 folate binding site [chemical binding]; other site 342610003656 TolB amino-terminal domain; Region: TolB_N; cl00639 342610003657 Sporulation related domain; Region: SPOR; cl10051 342610003658 TolB amino-terminal domain; Region: TolB_N; cl00639 342610003659 TolB amino-terminal domain; Region: TolB_N; cl00639 342610003660 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 342610003661 ATP cone domain; Region: ATP-cone; pfam03477 342610003662 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 342610003663 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 342610003664 catalytic motif [active] 342610003665 Zn binding site [ion binding]; other site 342610003666 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 342610003667 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 342610003668 Lumazine binding domain; Region: Lum_binding; pfam00677 342610003669 Lumazine binding domain; Region: Lum_binding; pfam00677 342610003670 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 342610003671 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 342610003672 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 342610003673 dimerization interface [polypeptide binding]; other site 342610003674 active site 342610003675 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 342610003676 homopentamer interface [polypeptide binding]; other site 342610003677 active site 342610003678 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 342610003679 putative RNA binding site [nucleotide binding]; other site 342610003680 thiamine monophosphate kinase; Provisional; Region: PRK05731 342610003681 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 342610003682 ATP binding site [chemical binding]; other site 342610003683 dimerization interface [polypeptide binding]; other site 342610003684 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 342610003685 tetramer interfaces [polypeptide binding]; other site 342610003686 binuclear metal-binding site [ion binding]; other site 342610003687 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 342610003688 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 342610003689 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 342610003690 TPP-binding site; other site 342610003691 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 342610003692 PYR/PP interface [polypeptide binding]; other site 342610003693 dimer interface [polypeptide binding]; other site 342610003694 TPP binding site [chemical binding]; other site 342610003695 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 342610003696 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 342610003697 substrate binding pocket [chemical binding]; other site 342610003698 chain length determination region; other site 342610003699 substrate-Mg2+ binding site; other site 342610003700 catalytic residues [active] 342610003701 aspartate-rich region 1; other site 342610003702 active site lid residues [active] 342610003703 aspartate-rich region 2; other site 342610003704 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 342610003705 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 342610003706 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 342610003707 flagellar motor protein MotB; Reviewed; Region: motB; PRK08944 342610003708 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 342610003709 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 342610003710 ligand binding site [chemical binding]; other site 342610003711 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 342610003712 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 342610003713 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 342610003714 S-adenosylmethionine binding site [chemical binding]; other site 342610003715 Uncharacterized conserved protein [Function unknown]; Region: COG3496 342610003716 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 342610003717 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 342610003718 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610003719 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610003720 NADH(P)-binding; Region: NAD_binding_10; pfam13460 342610003721 NAD(P) binding site [chemical binding]; other site 342610003722 active site 342610003723 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 342610003724 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 342610003725 RNA polymerase sigma factor; Provisional; Region: PRK11924 342610003726 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 342610003727 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 342610003728 DNA binding residues [nucleotide binding] 342610003729 anti-sigma factor, putative, ChrR family; Region: anti_sig_ChrR; TIGR02451 342610003730 Cupin domain; Region: Cupin_2; cl09118 342610003731 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 342610003732 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 342610003733 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 342610003734 RNA binding surface [nucleotide binding]; other site 342610003735 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 342610003736 active site 342610003737 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 342610003738 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 342610003739 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 342610003740 Clp amino terminal domain; Region: Clp_N; pfam02861 342610003741 Clp amino terminal domain; Region: Clp_N; pfam02861 342610003742 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 342610003743 Walker A motif; other site 342610003744 ATP binding site [chemical binding]; other site 342610003745 Walker B motif; other site 342610003746 arginine finger; other site 342610003747 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 342610003748 Walker A motif; other site 342610003749 ATP binding site [chemical binding]; other site 342610003750 Walker B motif; other site 342610003751 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 342610003752 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 342610003753 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 342610003754 binding surface 342610003755 TPR motif; other site 342610003756 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 342610003757 binding surface 342610003758 TPR motif; other site 342610003759 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 342610003760 binding surface 342610003761 TPR motif; other site 342610003762 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 342610003763 binding surface 342610003764 TPR motif; other site 342610003765 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 342610003766 TPR motif; other site 342610003767 binding surface 342610003768 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 342610003769 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 342610003770 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 342610003771 Domain of unknown function (DUF1726); Region: DUF1726; pfam08351 342610003772 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610003773 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 342610003774 Possible tRNA binding domain; Region: tRNA_bind_2; pfam13725 342610003775 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 342610003776 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 342610003777 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 342610003778 N-terminal plug; other site 342610003779 ligand-binding site [chemical binding]; other site 342610003780 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 342610003781 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cd05120 342610003782 active site 342610003783 substrate binding site [chemical binding]; other site 342610003784 ATP binding site [chemical binding]; other site 342610003785 DNA polymerase III psi subunit; Region: DNA_III_psi; cl11436 342610003786 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 342610003787 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 342610003788 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 342610003789 non-specific DNA binding site [nucleotide binding]; other site 342610003790 salt bridge; other site 342610003791 sequence-specific DNA binding site [nucleotide binding]; other site 342610003792 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 342610003793 non-specific DNA binding site [nucleotide binding]; other site 342610003794 salt bridge; other site 342610003795 sequence-specific DNA binding site [nucleotide binding]; other site 342610003796 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610003797 NAD(P) binding site [chemical binding]; other site 342610003798 active site 342610003799 Protein of unknown function (DUF465); Region: DUF465; cl01070 342610003800 Transcriptional regulator [Transcription]; Region: LysR; COG0583 342610003801 Helix-turn-helix domains; Region: HTH; cl00088 342610003802 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 342610003803 putative effector binding pocket; other site 342610003804 dimerization interface [polypeptide binding]; other site 342610003805 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR6; cd08272 342610003806 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 342610003807 putative NAD(P) binding site [chemical binding]; other site 342610003808 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 342610003809 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 342610003810 G1 box; other site 342610003811 putative GEF interaction site [polypeptide binding]; other site 342610003812 GTP/Mg2+ binding site [chemical binding]; other site 342610003813 Switch I region; other site 342610003814 G2 box; other site 342610003815 G3 box; other site 342610003816 Switch II region; other site 342610003817 G4 box; other site 342610003818 G5 box; other site 342610003819 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 342610003820 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 342610003821 arginine-tRNA ligase; Region: PLN02286 342610003822 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 342610003823 active site 342610003824 HIGH motif; other site 342610003825 KMSK motif region; other site 342610003826 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 342610003827 tRNA binding surface [nucleotide binding]; other site 342610003828 anticodon binding site; other site 342610003829 peptide chain release factor 2; Validated; Region: prfB; PRK00578 342610003830 RF-1 domain; Region: RF-1; cl02875 342610003831 RF-1 domain; Region: RF-1; cl02875 342610003832 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 342610003833 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 342610003834 dimer interface [polypeptide binding]; other site 342610003835 putative anticodon binding site; other site 342610003836 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 342610003837 motif 1; other site 342610003838 active site 342610003839 motif 2; other site 342610003840 motif 3; other site 342610003841 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 342610003842 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610003843 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 342610003844 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 342610003845 active site 342610003846 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 342610003847 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 342610003848 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 342610003849 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 342610003850 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 342610003851 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 342610003852 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 342610003853 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 342610003854 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 342610003855 N-acetyl-D-glucosamine binding site [chemical binding]; other site 342610003856 catalytic residue [active] 342610003857 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08276 342610003858 AMP-binding enzyme; Region: AMP-binding; cl15778 342610003859 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 342610003860 Helix-turn-helix domains; Region: HTH; cl00088 342610003861 WHG domain; Region: WHG; pfam13305 342610003862 enoyl-CoA hydratase; Provisional; Region: PRK06142 342610003863 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 342610003864 substrate binding site [chemical binding]; other site 342610003865 oxyanion hole (OAH) forming residues; other site 342610003866 trimer interface [polypeptide binding]; other site 342610003867 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 342610003868 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 342610003869 active site 342610003870 FMN binding site [chemical binding]; other site 342610003871 2,4-decadienoyl-CoA binding site; other site 342610003872 catalytic residue [active] 342610003873 4Fe-4S cluster binding site [ion binding]; other site 342610003874 Transcriptional regulator [Transcription]; Region: LysR; COG0583 342610003875 Helix-turn-helix domains; Region: HTH; cl00088 342610003876 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 342610003877 putative effector binding pocket; other site 342610003878 dimerization interface [polypeptide binding]; other site 342610003879 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 342610003880 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 342610003881 active site 342610003882 catalytic tetrad [active] 342610003883 Domain of unknown function (DUF336); Region: DUF336; cl01249 342610003884 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_2; cd11339 342610003885 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 342610003886 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_2; cd11339 342610003887 active site 342610003888 catalytic site [active] 342610003889 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 342610003890 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 342610003891 Sensors of blue-light using FAD; Region: BLUF; cl04855 342610003892 Transposase; Region: DEDD_Tnp_IS110; pfam01548 342610003893 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 342610003894 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 342610003895 non-specific DNA binding site [nucleotide binding]; other site 342610003896 salt bridge; other site 342610003897 sequence-specific DNA binding site [nucleotide binding]; other site 342610003898 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 342610003899 Uncharacterized protein family (UPF0231); Region: UPF0231; cl11474 342610003900 Protein of unknown function DUF45; Region: DUF45; cl00636 342610003901 Uncharacterized conserved protein (DUF2132); Region: DUF2132; cl01894 342610003902 SpoVR family protein; Provisional; Region: PRK11767 342610003903 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 342610003904 Uncharacterized conserved protein [Function unknown]; Region: COG2718 342610003905 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 342610003906 PrkA family serine protein kinase; Provisional; Region: PRK15455 342610003907 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610003908 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 342610003909 superoxide dismutase; Provisional; Region: PRK10543 342610003910 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 342610003911 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 342610003912 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 342610003913 putative GSH binding site [chemical binding]; other site 342610003914 catalytic residues [active] 342610003915 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 342610003916 peroxidase; Provisional; Region: PRK15000 342610003917 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 342610003918 dimer interface [polypeptide binding]; other site 342610003919 decamer (pentamer of dimers) interface [polypeptide binding]; other site 342610003920 catalytic triad [active] 342610003921 peroxidatic and resolving cysteines [active] 342610003922 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 342610003923 dimer interface [polypeptide binding]; other site 342610003924 catalytic site [active] 342610003925 putative active site [active] 342610003926 putative substrate binding site [chemical binding]; other site 342610003927 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 342610003928 ligand binding site [chemical binding]; other site 342610003929 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 342610003930 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 342610003931 active site 342610003932 catalytic site [active] 342610003933 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 342610003934 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 342610003935 dimer interface [polypeptide binding]; other site 342610003936 active site 342610003937 metal binding site [ion binding]; metal-binding site 342610003938 glutathione binding site [chemical binding]; other site 342610003939 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 342610003940 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; cl15381 342610003941 Chitin/cellulose binding domain. Putative carbohydrate binding domain found in many different glycosyl hydrolase enzymes. May occur in tandem arrangements; Region: ChtBD3; cl00046 342610003942 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 342610003943 Prostaglandin dehydrogenases; Region: PGDH; cd05288 342610003944 NAD(P) binding site [chemical binding]; other site 342610003945 substrate binding site [chemical binding]; other site 342610003946 dimer interface [polypeptide binding]; other site 342610003947 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610003948 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 342610003949 NAD(P) binding site [chemical binding]; other site 342610003950 active site 342610003951 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 342610003952 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 342610003953 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 342610003954 active site 342610003955 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 342610003956 Predicted transcriptional regulator [Transcription]; Region: COG2944 342610003957 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 342610003958 Transcriptional regulators [Transcription]; Region: GntR; COG1802 342610003959 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 342610003960 DNA-binding site [nucleotide binding]; DNA binding site 342610003961 FCD domain; Region: FCD; cl11656 342610003962 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 342610003963 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 342610003964 tetramer interface [polypeptide binding]; other site 342610003965 active site 342610003966 Mg2+/Mn2+ binding site [ion binding]; other site 342610003967 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) catalyzes...; Region: Ec2MCS_like; cd06108 342610003968 dimer interface [polypeptide binding]; other site 342610003969 Citrate synthase; Region: Citrate_synt; pfam00285 342610003970 active site 342610003971 citrylCoA binding site [chemical binding]; other site 342610003972 oxalacetate/citrate binding site [chemical binding]; other site 342610003973 coenzyme A binding site [chemical binding]; other site 342610003974 catalytic triad [active] 342610003975 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 342610003976 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 342610003977 substrate binding site [chemical binding]; other site 342610003978 ligand binding site [chemical binding]; other site 342610003979 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 342610003980 substrate binding site [chemical binding]; other site 342610003981 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 342610003982 PrpF protein; Region: PrpF; pfam04303 342610003983 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 342610003984 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 342610003985 putative substrate translocation pore; other site 342610003986 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610003987 metal binding site [ion binding]; metal-binding site 342610003988 active site 342610003989 I-site; other site 342610003990 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 342610003991 FMN binding site [chemical binding]; other site 342610003992 active site 342610003993 substrate binding site [chemical binding]; other site 342610003994 catalytic residue [active] 342610003995 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 342610003996 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 342610003997 putative NAD(P) binding site [chemical binding]; other site 342610003998 putative substrate binding site [chemical binding]; other site 342610003999 catalytic Zn binding site [ion binding]; other site 342610004000 structural Zn binding site [ion binding]; other site 342610004001 dimer interface [polypeptide binding]; other site 342610004002 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 342610004003 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 342610004004 Ethanolamine ammonia-lyase light chain (EutC); Region: EutC; cl01762 342610004005 Protein of unknown function (DUF3466); Region: DUF3466; pfam11949 342610004006 Streptogramin lyase [Defense mechanisms]; Region: Vgb; COG4257 342610004007 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 342610004008 classical (c) SDRs; Region: SDR_c; cd05233 342610004009 NAD(P) binding site [chemical binding]; other site 342610004010 active site 342610004011 Uncharacterized conserved protein [Function unknown]; Region: COG2966 342610004012 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 342610004013 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 342610004014 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 342610004015 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 342610004016 active site 342610004017 FMN binding site [chemical binding]; other site 342610004018 substrate binding site [chemical binding]; other site 342610004019 3Fe-4S cluster binding site [ion binding]; other site 342610004020 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 342610004021 active site 342610004022 metal binding site [ion binding]; metal-binding site 342610004023 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 342610004024 LysR family transcriptional regulator; Provisional; Region: PRK14997 342610004025 Helix-turn-helix domains; Region: HTH; cl00088 342610004026 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like_1; cd08470 342610004027 putative effector binding pocket; other site 342610004028 putative dimerization interface [polypeptide binding]; other site 342610004029 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 342610004030 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 342610004031 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 342610004032 substrate binding site [chemical binding]; other site 342610004033 catalytic Zn binding site [ion binding]; other site 342610004034 NAD binding site [chemical binding]; other site 342610004035 structural Zn binding site [ion binding]; other site 342610004036 dimer interface [polypeptide binding]; other site 342610004037 Predicted esterase [General function prediction only]; Region: COG0627 342610004038 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 342610004039 Transcriptional regulator [Transcription]; Region: LysR; COG0583 342610004040 Helix-turn-helix domains; Region: HTH; cl00088 342610004041 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 342610004042 putative effector binding pocket; other site 342610004043 dimerization interface [polypeptide binding]; other site 342610004044 Cupin domain; Region: Cupin_2; cl09118 342610004045 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 342610004046 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 342610004047 N-terminal plug; other site 342610004048 ligand-binding site [chemical binding]; other site 342610004049 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 342610004050 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 342610004051 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 342610004052 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 342610004053 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 342610004054 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 342610004055 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610004056 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 342610004057 maleylacetoacetate isomerase; Region: maiA; TIGR01262 342610004058 C-terminal domain interface [polypeptide binding]; other site 342610004059 GSH binding site (G-site) [chemical binding]; other site 342610004060 putative dimer interface [polypeptide binding]; other site 342610004061 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 342610004062 dimer interface [polypeptide binding]; other site 342610004063 N-terminal domain interface [polypeptide binding]; other site 342610004064 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 342610004065 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 342610004066 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 342610004067 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 342610004068 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 342610004069 HEAT repeats; Region: HEAT_2; pfam13646 342610004070 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 342610004071 binding surface 342610004072 Tetratricopeptide repeat; Region: TPR_16; pfam13432 342610004073 TPR motif; other site 342610004074 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 342610004075 TPR motif; other site 342610004076 binding surface 342610004077 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_17; cd08356 342610004078 LysE type translocator; Region: LysE; cl00565 342610004079 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 342610004080 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 342610004081 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 342610004082 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 342610004083 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 342610004084 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 342610004085 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 342610004086 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610004087 Walker A/P-loop; other site 342610004088 ATP binding site [chemical binding]; other site 342610004089 Q-loop/lid; other site 342610004090 ABC transporter signature motif; other site 342610004091 Walker B; other site 342610004092 D-loop; other site 342610004093 H-loop/switch region; other site 342610004094 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 342610004095 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610004096 Walker A/P-loop; other site 342610004097 ATP binding site [chemical binding]; other site 342610004098 Q-loop/lid; other site 342610004099 ABC transporter signature motif; other site 342610004100 Walker B; other site 342610004101 D-loop; other site 342610004102 H-loop/switch region; other site 342610004103 OsmC-like protein; Region: OsmC; cl00767 342610004104 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 342610004105 active site 342610004106 metal binding site [ion binding]; metal-binding site 342610004107 HDOD domain; Region: HDOD; pfam08668 342610004108 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 342610004109 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3602 342610004110 ACT domain; Region: ACT_3; pfam10000 342610004111 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 342610004112 enoyl-CoA hydratase; Provisional; Region: PRK06688 342610004113 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 342610004114 substrate binding site [chemical binding]; other site 342610004115 oxyanion hole (OAH) forming residues; other site 342610004116 trimer interface [polypeptide binding]; other site 342610004117 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 342610004118 Helix-turn-helix domains; Region: HTH; cl00088 342610004119 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 342610004120 Putative transmembrane protein (PGPGW); Region: PGPGW; cl09870 342610004121 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 342610004122 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 342610004123 Putative catalytic domain, repeat 1, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_1; cd09157 342610004124 putative active site [active] 342610004125 catalytic site [active] 342610004126 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_2; cd09163 342610004127 putative active site [active] 342610004128 catalytic site [active] 342610004129 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 342610004130 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 342610004131 Ligand Binding Site [chemical binding]; other site 342610004132 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 342610004133 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 342610004134 active site 342610004135 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 342610004136 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 342610004137 Family description; Region: VCBS; pfam13517 342610004138 Family description; Region: VCBS; pfam13517 342610004139 Family description; Region: VCBS; pfam13517 342610004140 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 342610004141 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 342610004142 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 342610004143 homotrimer interaction site [polypeptide binding]; other site 342610004144 putative active site [active] 342610004145 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 342610004146 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 342610004147 catalytic residue [active] 342610004148 2-isopropylmalate synthase; Validated; Region: PRK03739 342610004149 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 342610004150 active site 342610004151 catalytic residues [active] 342610004152 metal binding site [ion binding]; metal-binding site 342610004153 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 342610004154 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 342610004155 Helix-turn-helix domains; Region: HTH; cl00088 342610004156 putative alcohol dehydrogenase; Provisional; Region: PRK09860 342610004157 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 342610004158 dimer interface [polypeptide binding]; other site 342610004159 active site 342610004160 metal binding site [ion binding]; metal-binding site 342610004161 LysE type translocator; Region: LysE; cl00565 342610004162 aminotransferase; Validated; Region: PRK07337 342610004163 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 342610004164 pyridoxal 5'-phosphate binding site [chemical binding]; other site 342610004165 homodimer interface [polypeptide binding]; other site 342610004166 catalytic residue [active] 342610004167 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 342610004168 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 342610004169 N-terminal plug; other site 342610004170 ligand-binding site [chemical binding]; other site 342610004171 Bacterial proteins similar to Porphyromonas gingivalis HmuY; Region: HmuY_like; cd07472 342610004172 Bacterial proteins similar to Porphyromonas gingivalis HmuY; Region: HmuY_like; cd07472 342610004173 ABC-type hemin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ChuT; COG4558 342610004174 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 342610004175 intersubunit interface [polypeptide binding]; other site 342610004176 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 342610004177 ABC-ATPase subunit interface; other site 342610004178 dimer interface [polypeptide binding]; other site 342610004179 putative PBP binding regions; other site 342610004180 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 342610004181 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 342610004182 Walker A/P-loop; other site 342610004183 ATP binding site [chemical binding]; other site 342610004184 Q-loop/lid; other site 342610004185 ABC transporter signature motif; other site 342610004186 Walker B; other site 342610004187 D-loop; other site 342610004188 H-loop/switch region; other site 342610004189 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 342610004190 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 342610004191 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 342610004192 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 342610004193 catalytic residues [active] 342610004194 Ion channel; Region: Ion_trans_2; cl11596 342610004195 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 342610004196 CAAX protease self-immunity; Region: Abi; cl00558 342610004197 Transcriptional regulator [Transcription]; Region: LysR; COG0583 342610004198 Helix-turn-helix domains; Region: HTH; cl00088 342610004199 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 342610004200 putative effector binding pocket; other site 342610004201 dimerization interface [polypeptide binding]; other site 342610004202 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 342610004203 putative active site [active] 342610004204 REJ domain; Region: REJ; pfam02010 342610004205 REJ domain; Region: REJ; pfam02010 342610004206 Domains similar to the eukaryotic reeler domain and bacterial cohesins; Region: Reeler_cohesin_like; cl14606 342610004207 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 342610004208 TPR motif; other site 342610004209 binding surface 342610004210 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 342610004211 TPR motif; other site 342610004212 binding surface 342610004213 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 342610004214 binding surface 342610004215 TPR motif; other site 342610004216 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 342610004217 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_4; cd07582 342610004218 putative active site [active] 342610004219 catalytic triad [active] 342610004220 putative dimer interface [polypeptide binding]; other site 342610004221 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 342610004222 Methylomonas sp. 4,4'-diapolycopene-dialdehyde dehydrogenase-like; Region: ALDH_DDALDH; cd07099 342610004223 NAD(P) binding site [chemical binding]; other site 342610004224 catalytic residues [active] 342610004225 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 342610004226 Major Facilitator Superfamily; Region: MFS_1; pfam07690 342610004227 putative substrate translocation pore; other site 342610004228 YCII-related domain; Region: YCII; cl00999 342610004229 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 342610004230 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 342610004231 DNA-binding site [nucleotide binding]; DNA binding site 342610004232 UTRA domain; Region: UTRA; cl01230 342610004233 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 342610004234 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 342610004235 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 342610004236 AMP-binding enzyme; Region: AMP-binding; cl15778 342610004237 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 342610004238 Amidase; Region: Amidase; cl11426 342610004239 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 342610004240 Transcriptional regulator [Transcription]; Region: LysR; COG0583 342610004241 Helix-turn-helix domains; Region: HTH; cl00088 342610004242 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 342610004243 dimerization interface [polypeptide binding]; other site 342610004244 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 342610004245 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 342610004246 amidohydrolase; Region: amidohydrolases; TIGR01891 342610004247 putative metal binding site [ion binding]; other site 342610004248 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_3; cd06237 342610004249 putative active site [active] 342610004250 Zn binding site [ion binding]; other site 342610004251 Secretin and TonB N terminus short domain; Region: STN; cl06624 342610004252 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610004253 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610004254 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 342610004255 FecR protein; Region: FecR; pfam04773 342610004256 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 342610004257 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 342610004258 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 342610004259 DNA binding residues [nucleotide binding] 342610004260 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 342610004261 dimer interface [polypeptide binding]; other site 342610004262 ADP-ribose binding site [chemical binding]; other site 342610004263 active site 342610004264 nudix motif; other site 342610004265 metal binding site [ion binding]; metal-binding site 342610004266 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 342610004267 YHYH protein; Region: YHYH; pfam14240 342610004268 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 342610004269 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 342610004270 active site 342610004271 phosphorylation site [posttranslational modification] 342610004272 intermolecular recognition site; other site 342610004273 dimerization interface [polypeptide binding]; other site 342610004274 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 342610004275 DNA binding site [nucleotide binding] 342610004276 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 342610004277 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 342610004278 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 342610004279 dimer interface [polypeptide binding]; other site 342610004280 phosphorylation site [posttranslational modification] 342610004281 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 342610004282 ATP binding site [chemical binding]; other site 342610004283 Mg2+ binding site [ion binding]; other site 342610004284 G-X-G motif; other site 342610004285 UDP-glucose/GDP-mannose dehydrogenase family, NAD binding domain; Region: UDPG_MGDP_dh_N; pfam03721 342610004286 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610004287 Heme NO binding; Region: HNOB; cl15268 342610004288 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 342610004289 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 342610004290 dimer interface [polypeptide binding]; other site 342610004291 phosphorylation site [posttranslational modification] 342610004292 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 342610004293 ATP binding site [chemical binding]; other site 342610004294 Mg2+ binding site [ion binding]; other site 342610004295 G-X-G motif; other site 342610004296 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 342610004297 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 342610004298 active site 342610004299 phosphorylation site [posttranslational modification] 342610004300 intermolecular recognition site; other site 342610004301 dimerization interface [polypeptide binding]; other site 342610004302 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 342610004303 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 342610004304 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 342610004305 dimerization interface [polypeptide binding]; other site 342610004306 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 342610004307 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 342610004308 dimer interface [polypeptide binding]; other site 342610004309 phosphorylation site [posttranslational modification] 342610004310 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 342610004311 ATP binding site [chemical binding]; other site 342610004312 Mg2+ binding site [ion binding]; other site 342610004313 G-X-G motif; other site 342610004314 NMT1-like family; Region: NMT1_2; cl15260 342610004315 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 342610004316 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 342610004317 DNA binding residues [nucleotide binding] 342610004318 Response regulator receiver domain; Region: Response_reg; pfam00072 342610004319 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 342610004320 active site 342610004321 phosphorylation site [posttranslational modification] 342610004322 intermolecular recognition site; other site 342610004323 dimerization interface [polypeptide binding]; other site 342610004324 Response regulator receiver domain; Region: Response_reg; pfam00072 342610004325 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 342610004326 active site 342610004327 phosphorylation site [posttranslational modification] 342610004328 intermolecular recognition site; other site 342610004329 dimerization interface [polypeptide binding]; other site 342610004330 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 342610004331 hypothetical protein; Provisional; Region: PRK04946 342610004332 Smr domain; Region: Smr; cl02619 342610004333 HemK family putative methylases; Region: hemK_fam; TIGR00536 342610004334 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 342610004335 S-adenosylmethionine binding site [chemical binding]; other site 342610004336 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 342610004337 Tetramer interface [polypeptide binding]; other site 342610004338 active site 342610004339 FMN-binding site [chemical binding]; other site 342610004340 MFS_1 like family; Region: MFS_1_like; pfam12832 342610004341 Major Facilitator Superfamily; Region: MFS_1; pfam07690 342610004342 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 342610004343 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 342610004344 DNA-binding site [nucleotide binding]; DNA binding site 342610004345 RNA-binding motif; other site 342610004346 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 342610004347 active site 342610004348 homodimer interface [polypeptide binding]; other site 342610004349 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 342610004350 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 342610004351 Protein of unknown function (DUF1255); Region: DUF1255; cl01202 342610004352 Cupin superfamily (DUF985); Region: Cupin_5; cl01418 342610004353 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 342610004354 active site 342610004355 lipoyl synthase; Provisional; Region: PRK05481 342610004356 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 342610004357 FeS/SAM binding site; other site 342610004358 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 342610004359 Protein of unknown function (DUF493); Region: DUF493; cl01102 342610004360 D-alanyl-D-alanine carboxypeptidase fraction C; Provisional; Region: PRK10001 342610004361 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 342610004362 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 342610004363 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 342610004364 Sporulation related domain; Region: SPOR; cl10051 342610004365 Transglycosylase SLT domain; Region: SLT_2; pfam13406 342610004366 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 342610004367 N-acetyl-D-glucosamine binding site [chemical binding]; other site 342610004368 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 342610004369 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 342610004370 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 342610004371 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 342610004372 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 342610004373 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 342610004374 Oligomerisation domain; Region: Oligomerisation; cl00519 342610004375 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 342610004376 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 342610004377 active site 342610004378 (T/H)XGH motif; other site 342610004379 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 342610004380 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 342610004381 Lipopolysaccharide-assembly; Region: LptE; cl01125 342610004382 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 342610004383 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 342610004384 HIGH motif; other site 342610004385 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 342610004386 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 342610004387 active site 342610004388 KMSKS motif; other site 342610004389 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 342610004390 tRNA binding surface [nucleotide binding]; other site 342610004391 AAA domain; Region: AAA_32; pfam13654 342610004392 ATP-dependent protease Lon; Provisional; Region: PRK13765 342610004393 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 342610004394 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 342610004395 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 342610004396 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 342610004397 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 342610004398 S-adenosylmethionine binding site [chemical binding]; other site 342610004399 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 342610004400 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 342610004401 Walker A motif; other site 342610004402 ATP binding site [chemical binding]; other site 342610004403 Walker B motif; other site 342610004404 arginine finger; other site 342610004405 Peptidase family M41; Region: Peptidase_M41; pfam01434 342610004406 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 342610004407 dihydropteroate synthase; Region: DHPS; TIGR01496 342610004408 substrate binding pocket [chemical binding]; other site 342610004409 dimer interface [polypeptide binding]; other site 342610004410 inhibitor binding site; inhibition site 342610004411 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 342610004412 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 342610004413 active site 342610004414 substrate binding site [chemical binding]; other site 342610004415 metal binding site [ion binding]; metal-binding site 342610004416 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 342610004417 substrate binding site [chemical binding]; other site 342610004418 dimer interface [polypeptide binding]; other site 342610004419 catalytic triad [active] 342610004420 Preprotein translocase SecG subunit; Region: SecG; cl09123 342610004421 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 342610004422 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 342610004423 Walker A/P-loop; other site 342610004424 ATP binding site [chemical binding]; other site 342610004425 Q-loop/lid; other site 342610004426 ABC transporter signature motif; other site 342610004427 Walker B; other site 342610004428 D-loop; other site 342610004429 H-loop/switch region; other site 342610004430 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 342610004431 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 342610004432 RimM N-terminal domain; Region: RimM; pfam01782 342610004433 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 342610004434 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 342610004435 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 342610004436 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 342610004437 active site 342610004438 metal binding site [ion binding]; metal-binding site 342610004439 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 342610004440 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 342610004441 DNA binding residues [nucleotide binding] 342610004442 dimer interface [polypeptide binding]; other site 342610004443 [2Fe-2S] cluster binding site [ion binding]; other site 342610004444 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 342610004445 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 342610004446 maltose O-acetyltransferase; Provisional; Region: PRK10092 342610004447 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 342610004448 active site 342610004449 substrate binding site [chemical binding]; other site 342610004450 trimer interface [polypeptide binding]; other site 342610004451 CoA binding site [chemical binding]; other site 342610004452 DNA-J related protein; Region: DNAJ_related; pfam12339 342610004453 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 342610004454 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 342610004455 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 342610004456 active site 342610004457 Zn binding site [ion binding]; other site 342610004458 NeuB family; Region: NeuB; cl00496 342610004459 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 342610004460 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 342610004461 Chorismate mutase type II; Region: CM_2; cl00693 342610004462 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610004463 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 342610004464 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 342610004465 Chorismate mutase type II; Region: CM_2; cl00693 342610004466 Prephenate dehydratase; Region: PDT; pfam00800 342610004467 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 342610004468 putative L-Phe binding site [chemical binding]; other site 342610004469 Response regulator receiver domain; Region: Response_reg; pfam00072 342610004470 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 342610004471 active site 342610004472 phosphorylation site [posttranslational modification] 342610004473 intermolecular recognition site; other site 342610004474 dimerization interface [polypeptide binding]; other site 342610004475 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 342610004476 active site 342610004477 phosphorylation site [posttranslational modification] 342610004478 intermolecular recognition site; other site 342610004479 dimerization interface [polypeptide binding]; other site 342610004480 translation initiation factor Sui1; Validated; Region: PRK06824 342610004481 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 342610004482 putative rRNA binding site [nucleotide binding]; other site 342610004483 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 342610004484 anti sigma factor interaction site; other site 342610004485 regulatory phosphorylation site [posttranslational modification]; other site 342610004486 Response regulator receiver domain; Region: Response_reg; pfam00072 342610004487 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 342610004488 active site 342610004489 phosphorylation site [posttranslational modification] 342610004490 intermolecular recognition site; other site 342610004491 dimerization interface [polypeptide binding]; other site 342610004492 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 342610004493 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 342610004494 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 342610004495 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 342610004496 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 342610004497 Coenzyme A binding pocket [chemical binding]; other site 342610004498 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 342610004499 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 342610004500 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 342610004501 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 342610004502 dimer interface [polypeptide binding]; other site 342610004503 conserved gate region; other site 342610004504 putative PBP binding loops; other site 342610004505 ABC-ATPase subunit interface; other site 342610004506 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 342610004507 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 342610004508 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 342610004509 Walker A/P-loop; other site 342610004510 ATP binding site [chemical binding]; other site 342610004511 Q-loop/lid; other site 342610004512 ABC transporter signature motif; other site 342610004513 Walker B; other site 342610004514 D-loop; other site 342610004515 H-loop/switch region; other site 342610004516 TOBE domain; Region: TOBE_2; cl01440 342610004517 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 342610004518 putative metal binding site [ion binding]; other site 342610004519 phosphatidylserine decarboxylase; Region: PLN02964 342610004520 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl08302 342610004521 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 342610004522 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 342610004523 ATP binding site [chemical binding]; other site 342610004524 Mg2+ binding site [ion binding]; other site 342610004525 G-X-G motif; other site 342610004526 response regulator GlrR; Provisional; Region: PRK15115 342610004527 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 342610004528 active site 342610004529 phosphorylation site [posttranslational modification] 342610004530 intermolecular recognition site; other site 342610004531 dimerization interface [polypeptide binding]; other site 342610004532 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 342610004533 Walker A motif; other site 342610004534 ATP binding site [chemical binding]; other site 342610004535 Walker B motif; other site 342610004536 arginine finger; other site 342610004537 Helix-turn-helix domains; Region: HTH; cl00088 342610004538 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 342610004539 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 342610004540 dimerization interface 3.5A [polypeptide binding]; other site 342610004541 active site 342610004542 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 342610004543 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 342610004544 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 342610004545 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 342610004546 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 342610004547 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DedD; COG3147 342610004548 Sporulation related domain; Region: SPOR; cl10051 342610004549 Colicin V production protein; Region: Colicin_V; cl00567 342610004550 amidophosphoribosyltransferase; Provisional; Region: PRK09246 342610004551 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 342610004552 active site 342610004553 tetramer interface [polypeptide binding]; other site 342610004554 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 342610004555 active site 342610004556 Yip1 domain; Region: Yip1; cl12048 342610004557 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 342610004558 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 342610004559 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 342610004560 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 342610004561 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610004562 Walker A/P-loop; other site 342610004563 ATP binding site [chemical binding]; other site 342610004564 Q-loop/lid; other site 342610004565 ABC transporter signature motif; other site 342610004566 Walker B; other site 342610004567 D-loop; other site 342610004568 H-loop/switch region; other site 342610004569 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 342610004570 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610004571 Walker A/P-loop; other site 342610004572 ATP binding site [chemical binding]; other site 342610004573 Q-loop/lid; other site 342610004574 ABC transporter signature motif; other site 342610004575 Walker B; other site 342610004576 D-loop; other site 342610004577 H-loop/switch region; other site 342610004578 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 342610004579 ABC-2 type transporter; Region: ABC2_membrane; cl11417 342610004580 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 342610004581 ABC-2 type transporter; Region: ABC2_membrane; cl11417 342610004582 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 342610004583 active site 342610004584 dinuclear metal binding site [ion binding]; other site 342610004585 dimerization interface [polypeptide binding]; other site 342610004586 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 342610004587 active site 342610004588 motif I; other site 342610004589 motif II; other site 342610004590 DoxX; Region: DoxX; cl00976 342610004591 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 342610004592 putative FMN binding site [chemical binding]; other site 342610004593 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 342610004594 DEAD-like helicases superfamily; Region: DEXDc; smart00487 342610004595 ATP binding site [chemical binding]; other site 342610004596 Mg++ binding site [ion binding]; other site 342610004597 motif III; other site 342610004598 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 342610004599 nucleotide binding region [chemical binding]; other site 342610004600 ATP-binding site [chemical binding]; other site 342610004601 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 342610004602 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 342610004603 Transcriptional regulator [Transcription]; Region: LysR; COG0583 342610004604 Helix-turn-helix domains; Region: HTH; cl00088 342610004605 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 342610004606 putative dimerization interface [polypeptide binding]; other site 342610004607 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 342610004608 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 342610004609 ATP binding site [chemical binding]; other site 342610004610 Mg2+ binding site [ion binding]; other site 342610004611 G-X-G motif; other site 342610004612 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 342610004613 Helix-turn-helix domains; Region: HTH; cl00088 342610004614 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 342610004615 substrate binding site [chemical binding]; other site 342610004616 dimerization interface [polypeptide binding]; other site 342610004617 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 342610004618 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 342610004619 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 342610004620 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 342610004621 putative active site [active] 342610004622 putative CoA binding site [chemical binding]; other site 342610004623 nudix motif; other site 342610004624 metal binding site [ion binding]; metal-binding site 342610004625 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 342610004626 aminodeoxychorismate synthase subunit I; Provisional; Region: pabB; PRK15465 342610004627 chorismate binding enzyme; Region: Chorismate_bind; cl10555 342610004628 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 342610004629 Fumarase C-terminus; Region: Fumerase_C; cl00795 342610004630 RmuC family; Region: RmuC; pfam02646 342610004631 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 342610004632 active site 342610004633 Pectinacetylesterase; Region: PAE; pfam03283 342610004634 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 342610004635 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 342610004636 RNase E interface [polypeptide binding]; other site 342610004637 trimer interface [polypeptide binding]; other site 342610004638 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 342610004639 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 342610004640 RNase E interface [polypeptide binding]; other site 342610004641 trimer interface [polypeptide binding]; other site 342610004642 active site 342610004643 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 342610004644 putative nucleic acid binding region [nucleotide binding]; other site 342610004645 G-X-X-G motif; other site 342610004646 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 342610004647 RNA binding site [nucleotide binding]; other site 342610004648 domain interface; other site 342610004649 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 342610004650 active site 342610004651 phosphate binding residues; other site 342610004652 catalytic residues [active] 342610004653 glyceraldehyde-3-phosphate dehydrogenase A; Provisional; Region: gapA; PRK15425 342610004654 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610004655 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 342610004656 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 342610004657 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 342610004658 glycogen branching enzyme; Provisional; Region: PRK05402 342610004659 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 342610004660 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 342610004661 active site 342610004662 catalytic site [active] 342610004663 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 342610004664 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 342610004665 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 342610004666 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 342610004667 active site 342610004668 catalytic site [active] 342610004669 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 342610004670 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 342610004671 Protein of unknown function (DUF2989); Region: DUF2989; pfam11207 342610004672 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 342610004673 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610004674 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 342610004675 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 342610004676 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 342610004677 active site 342610004678 Zn binding site [ion binding]; other site 342610004679 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 342610004680 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 342610004681 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 342610004682 Protein of unknown function (DUF1315); Region: DUF1315; cl01215 342610004683 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 342610004684 23S rRNA pseudouridine synthase F; Provisional; Region: PRK10475 342610004685 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 342610004686 RNA binding surface [nucleotide binding]; other site 342610004687 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 342610004688 probable active site [active] 342610004689 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 342610004690 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 342610004691 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 342610004692 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 342610004693 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 342610004694 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 342610004695 CysD dimerization site [polypeptide binding]; other site 342610004696 G1 box; other site 342610004697 putative GEF interaction site [polypeptide binding]; other site 342610004698 GTP/Mg2+ binding site [chemical binding]; other site 342610004699 Switch I region; other site 342610004700 G2 box; other site 342610004701 G3 box; other site 342610004702 Switch II region; other site 342610004703 G4 box; other site 342610004704 G5 box; other site 342610004705 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 342610004706 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 342610004707 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in cysteine...; Region: CysQ; cd01638 342610004708 active site 342610004709 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 342610004710 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 342610004711 ligand-binding site [chemical binding]; other site 342610004712 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 342610004713 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 342610004714 Active Sites [active] 342610004715 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 342610004716 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 342610004717 Sodium:solute symporter family; Region: SSF; cl00456 342610004718 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 342610004719 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 342610004720 Coenzyme A binding pocket [chemical binding]; other site 342610004721 Protein of unknown function (DUF3379); Region: DUF3379; pfam11859 342610004722 RNA polymerase sigma factor; Provisional; Region: PRK12517 342610004723 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 342610004724 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 342610004725 DNA binding residues [nucleotide binding] 342610004726 Oxygen tolerance; Region: BatD; pfam13584 342610004727 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 342610004728 metal ion-dependent adhesion site (MIDAS); other site 342610004729 Tetratricopeptide repeat; Region: TPR_16; pfam13432 342610004730 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 342610004731 VWA BatA type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_BatA_type; cd01467 342610004732 metal ion-dependent adhesion site (MIDAS); other site 342610004733 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 342610004734 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 342610004735 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 342610004736 MoxR-like ATPases [General function prediction only]; Region: COG0714 342610004737 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 342610004738 Walker A motif; other site 342610004739 ATP binding site [chemical binding]; other site 342610004740 Walker B motif; other site 342610004741 arginine finger; other site 342610004742 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 342610004743 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 342610004744 dimer interface [polypeptide binding]; other site 342610004745 active site 342610004746 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 342610004747 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 342610004748 substrate binding site [chemical binding]; other site 342610004749 oxyanion hole (OAH) forming residues; other site 342610004750 trimer interface [polypeptide binding]; other site 342610004751 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610004752 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 342610004753 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 342610004754 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 342610004755 PAS fold; Region: PAS_3; pfam08447 342610004756 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 342610004757 PAS domain; Region: PAS_9; pfam13426 342610004758 putative active site [active] 342610004759 heme pocket [chemical binding]; other site 342610004760 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610004761 metal binding site [ion binding]; metal-binding site 342610004762 active site 342610004763 I-site; other site 342610004764 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 342610004765 Secreted/periplasmic Zn-dependent peptidases, insulinase-like [Posttranslational modification, protein turnover, chaperones]; Region: Ptr; COG1025 342610004766 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 342610004767 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 342610004768 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 342610004769 catalytic core [active] 342610004770 hypothetical protein; Provisional; Region: PRK11573 342610004771 Domain of unknown function DUF21; Region: DUF21; pfam01595 342610004772 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 342610004773 Transporter associated domain; Region: CorC_HlyC; cl08393 342610004774 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 342610004775 signal recognition particle protein; Provisional; Region: PRK10867 342610004776 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 342610004777 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 342610004778 P loop; other site 342610004779 GTP binding site [chemical binding]; other site 342610004780 Signal peptide binding domain; Region: SRP_SPB; pfam02978 342610004781 Modulator of Rho-dependent transcription termination (ROF); Region: ROF; cl09210 342610004782 Uncharacterized protein family UPF0052; Region: UPF0052; pfam01933 342610004783 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 342610004784 phosphate binding site [ion binding]; other site 342610004785 putative substrate binding pocket [chemical binding]; other site 342610004786 dimer interface [polypeptide binding]; other site 342610004787 Transcriptional regulator [Transcription]; Region: LysR; COG0583 342610004788 Helix-turn-helix domains; Region: HTH; cl00088 342610004789 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 342610004790 putative effector binding pocket; other site 342610004791 dimerization interface [polypeptide binding]; other site 342610004792 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 342610004793 Prostaglandin dehydrogenases; Region: PGDH; cd05288 342610004794 NAD(P) binding site [chemical binding]; other site 342610004795 substrate binding site [chemical binding]; other site 342610004796 dimer interface [polypeptide binding]; other site 342610004797 Helix-turn-helix domains; Region: HTH; cl00088 342610004798 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 342610004799 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 342610004800 dimerization interface [polypeptide binding]; other site 342610004801 Cupin domain; Region: Cupin_2; cl09118 342610004802 DoxX; Region: DoxX; cl00976 342610004803 M28 Zn-Peptidase Aeromonas (Vibrio) proteolytica aminopeptidase (AAP)-like; Region: M28_AAP_like; cd05642 342610004804 putative metal binding site [ion binding]; other site 342610004805 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 342610004806 Interdomain contacts; other site 342610004807 Cytokine receptor motif; other site 342610004808 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 342610004809 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 342610004810 PAS fold; Region: PAS_3; pfam08447 342610004811 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610004812 metal binding site [ion binding]; metal-binding site 342610004813 active site 342610004814 I-site; other site 342610004815 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 342610004816 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 342610004817 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610004818 metal binding site [ion binding]; metal-binding site 342610004819 active site 342610004820 I-site; other site 342610004821 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 342610004822 PPIC-type PPIASE domain; Region: Rotamase; cl08278 342610004823 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 342610004824 intersubunit interface [polypeptide binding]; other site 342610004825 active site 342610004826 Zn2+ binding site [ion binding]; other site 342610004827 galactonate dehydratase; Provisional; Region: PRK14017 342610004828 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 342610004829 active site pocket [active] 342610004830 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 342610004831 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 342610004832 catalytic residue [active] 342610004833 acyl-CoA dehydrogenase; Reviewed; Region: PRK13026 342610004834 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 342610004835 active site 342610004836 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 342610004837 Peptidase family M23; Region: Peptidase_M23; pfam01551 342610004838 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 342610004839 active site 2 [active] 342610004840 active site 1 [active] 342610004841 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610004842 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 342610004843 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610004844 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 342610004845 aromatic arch; other site 342610004846 DCoH dimer interaction site [polypeptide binding]; other site 342610004847 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 342610004848 DCoH tetramer interaction site [polypeptide binding]; other site 342610004849 substrate binding site [chemical binding]; other site 342610004850 ribosome maturation protein RimP; Reviewed; Region: PRK00092 342610004851 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 342610004852 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 342610004853 Sm1 motif; other site 342610004854 D1 - D2 interaction site; other site 342610004855 D3 - B interaction site; other site 342610004856 Hfq - Hfq interaction site; other site 342610004857 RNA binding pocket [nucleotide binding]; other site 342610004858 Sm2 motif; other site 342610004859 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 342610004860 NusA N-terminal domain; Region: NusA_N; pfam08529 342610004861 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 342610004862 RNA binding site [nucleotide binding]; other site 342610004863 homodimer interface [polypeptide binding]; other site 342610004864 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 342610004865 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 342610004866 G-X-X-G motif; other site 342610004867 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 342610004868 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 342610004869 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 342610004870 translation initiation factor IF-2; Region: IF-2; TIGR00487 342610004871 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 342610004872 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 342610004873 G1 box; other site 342610004874 putative GEF interaction site [polypeptide binding]; other site 342610004875 GTP/Mg2+ binding site [chemical binding]; other site 342610004876 Switch I region; other site 342610004877 G2 box; other site 342610004878 G3 box; other site 342610004879 Switch II region; other site 342610004880 G4 box; other site 342610004881 G5 box; other site 342610004882 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 342610004883 Translation-initiation factor 2; Region: IF-2; pfam11987 342610004884 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 342610004885 Ribosome-binding factor A; Region: RBFA; cl00542 342610004886 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 342610004887 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 342610004888 RNA binding site [nucleotide binding]; other site 342610004889 active site 342610004890 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 342610004891 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 342610004892 16S/18S rRNA binding site [nucleotide binding]; other site 342610004893 S13e-L30e interaction site [polypeptide binding]; other site 342610004894 25S rRNA binding site [nucleotide binding]; other site 342610004895 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 342610004896 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 342610004897 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 342610004898 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610004899 Walker A/P-loop; other site 342610004900 ATP binding site [chemical binding]; other site 342610004901 Q-loop/lid; other site 342610004902 ABC transporter signature motif; other site 342610004903 Walker B; other site 342610004904 D-loop; other site 342610004905 H-loop/switch region; other site 342610004906 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610004907 metal binding site [ion binding]; metal-binding site 342610004908 active site 342610004909 I-site; other site 342610004910 Protein of unknown function (DUF330); Region: DUF330; cl01135 342610004911 paraquat-inducible protein B; Provisional; Region: PRK10807 342610004912 mce related protein; Region: MCE; pfam02470 342610004913 mce related protein; Region: MCE; pfam02470 342610004914 paraquat-inducible membrane protein A; Provisional; Region: PRK15103 342610004915 Paraquat-inducible protein A; Region: PqiA; pfam04403 342610004916 Paraquat-inducible protein A; Region: PqiA; pfam04403 342610004917 Low molecular weight phosphatase family; Region: LMWPc; cd00115 342610004918 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 342610004919 active site 342610004920 Class-II DAHP synthetase family; Region: DAHP_synth_2; cl03230 342610004921 FeoA domain; Region: FeoA; cl00838 342610004922 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 342610004923 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610004924 G1 box; other site 342610004925 GTP/Mg2+ binding site [chemical binding]; other site 342610004926 G2 box; other site 342610004927 Switch I region; other site 342610004928 G3 box; other site 342610004929 Switch II region; other site 342610004930 G4 box; other site 342610004931 G5 box; other site 342610004932 Nucleoside recognition; Region: Gate; cl00486 342610004933 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 342610004934 Nucleoside recognition; Region: Gate; cl00486 342610004935 LabA_like proteins; Region: LabA_like/DUF88; cl10034 342610004936 putative metal binding site [ion binding]; other site 342610004937 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 342610004938 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610004939 Walker A/P-loop; other site 342610004940 ATP binding site [chemical binding]; other site 342610004941 Q-loop/lid; other site 342610004942 ABC transporter signature motif; other site 342610004943 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 342610004944 Walker B; other site 342610004945 D-loop; other site 342610004946 H-loop/switch region; other site 342610004947 ABC transporter; Region: ABC_tran_2; pfam12848 342610004948 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 342610004949 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 342610004950 recombination and repair protein; Provisional; Region: PRK10869 342610004951 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 342610004952 Walker A/P-loop; other site 342610004953 ATP binding site [chemical binding]; other site 342610004954 Q-loop/lid; other site 342610004955 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 342610004956 ABC transporter signature motif; other site 342610004957 Walker B; other site 342610004958 D-loop; other site 342610004959 H-loop/switch region; other site 342610004960 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 342610004961 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 342610004962 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 342610004963 transmembrane helices; other site 342610004964 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 342610004965 Domain of unknown function (DUF1805); Region: DUF1805; cl01339 342610004966 Transcriptional regulator [Transcription]; Region: LysR; COG0583 342610004967 Helix-turn-helix domains; Region: HTH; cl00088 342610004968 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 342610004969 dimerization interface [polypeptide binding]; other site 342610004970 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 342610004971 Cytochrome c; Region: Cytochrom_C; cl11414 342610004972 Cytochrome c; Region: Cytochrom_C; cl11414 342610004973 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_3; cd06151 342610004974 homotrimer interaction site [polypeptide binding]; other site 342610004975 putative active site [active] 342610004976 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610004977 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610004978 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610004979 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 342610004980 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 342610004981 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 342610004982 transcription-repair coupling factor; Provisional; Region: PRK10689 342610004983 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 342610004984 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 342610004985 ATP binding site [chemical binding]; other site 342610004986 putative Mg++ binding site [ion binding]; other site 342610004987 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 342610004988 nucleotide binding region [chemical binding]; other site 342610004989 ATP-binding site [chemical binding]; other site 342610004990 TRCF domain; Region: TRCF; cl04088 342610004991 PilZ domain; Region: PilZ; cl01260 342610004992 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 342610004993 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 342610004994 FtsX-like permease family; Region: FtsX; cl15850 342610004995 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 342610004996 active site 342610004997 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 342610004998 Protein of unknown function (DUF419); Region: DUF419; cl15265 342610004999 CsbD-like; Region: CsbD; cl15799 342610005000 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 342610005001 putative active site [active] 342610005002 putative NTP binding site [chemical binding]; other site 342610005003 putative nucleic acid binding site [nucleotide binding]; other site 342610005004 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 342610005005 SmpB-tmRNA interface; other site 342610005006 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 342610005007 putative coenzyme Q binding site [chemical binding]; other site 342610005008 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 342610005009 Conserved hypothetical protein (DUF2461); Region: DUF2461; cl02374 342610005010 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 342610005011 phosphoenolpyruvate synthase; Validated; Region: PRK06464 342610005012 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 342610005013 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 342610005014 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 342610005015 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 342610005016 FAD binding domain; Region: FAD_binding_4; pfam01565 342610005017 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 342610005018 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 342610005019 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 342610005020 Beta-Casp domain; Region: Beta-Casp; cl12567 342610005021 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 342610005022 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 342610005023 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 342610005024 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 342610005025 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 342610005026 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 342610005027 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 342610005028 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 342610005029 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 342610005030 PAS fold; Region: PAS_4; pfam08448 342610005031 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 342610005032 dimer interface [polypeptide binding]; other site 342610005033 phosphorylation site [posttranslational modification] 342610005034 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 342610005035 ATP binding site [chemical binding]; other site 342610005036 Mg2+ binding site [ion binding]; other site 342610005037 G-X-G motif; other site 342610005038 Response regulator receiver domain; Region: Response_reg; pfam00072 342610005039 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 342610005040 active site 342610005041 phosphorylation site [posttranslational modification] 342610005042 intermolecular recognition site; other site 342610005043 dimerization interface [polypeptide binding]; other site 342610005044 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 342610005045 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 342610005046 putative NAD(P) binding site [chemical binding]; other site 342610005047 dimer interface [polypeptide binding]; other site 342610005048 Major royal jelly protein; Region: MRJP; pfam03022 342610005049 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 342610005050 putative catalytic residues [active] 342610005051 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 342610005052 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 342610005053 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 342610005054 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610005055 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 342610005056 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610005057 Family description; Region: UvrD_C_2; cl15862 342610005058 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 342610005059 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 342610005060 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 342610005061 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 342610005062 catalytic residue [active] 342610005063 Fe-S metabolism associated domain; Region: SufE; cl00951 342610005064 Isochorismatase family; Region: Isochorismatase; pfam00857 342610005065 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 342610005066 catalytic triad [active] 342610005067 dimer interface [polypeptide binding]; other site 342610005068 conserved cis-peptide bond; other site 342610005069 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 342610005070 Protein of unknown function (DUF3565); Region: DUF3565; pfam12088 342610005071 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 342610005072 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610005073 metal binding site [ion binding]; metal-binding site 342610005074 active site 342610005075 I-site; other site 342610005076 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 342610005077 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 342610005078 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610005079 metal binding site [ion binding]; metal-binding site 342610005080 active site 342610005081 I-site; other site 342610005082 2-dehydropantoate 2-reductase; Provisional; Region: PRK08229 342610005083 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610005084 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 342610005085 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 342610005086 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 342610005087 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 342610005088 Walker A/P-loop; other site 342610005089 ATP binding site [chemical binding]; other site 342610005090 Q-loop/lid; other site 342610005091 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 342610005092 ABC transporter signature motif; other site 342610005093 Walker B; other site 342610005094 D-loop; other site 342610005095 H-loop/switch region; other site 342610005096 cell division protein ZipA; Provisional; Region: PRK03427 342610005097 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 342610005098 FtsZ protein binding site [polypeptide binding]; other site 342610005099 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 342610005100 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 342610005101 nucleotide binding pocket [chemical binding]; other site 342610005102 K-X-D-G motif; other site 342610005103 catalytic site [active] 342610005104 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 342610005105 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 342610005106 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 342610005107 Dimer interface [polypeptide binding]; other site 342610005108 BRCT sequence motif; other site 342610005109 Protein of unknown function (DUF3392); Region: DUF3392; pfam11872 342610005110 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 342610005111 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 342610005112 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 342610005113 Competence protein; Region: Competence; cl00471 342610005114 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 342610005115 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 342610005116 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 342610005117 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 342610005118 Walker A/P-loop; other site 342610005119 ATP binding site [chemical binding]; other site 342610005120 Q-loop/lid; other site 342610005121 ABC transporter signature motif; other site 342610005122 Walker B; other site 342610005123 D-loop; other site 342610005124 H-loop/switch region; other site 342610005125 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 342610005126 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 342610005127 Trm112p-like protein; Region: Trm112p; cl01066 342610005128 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 342610005129 Ligand binding site; other site 342610005130 oligomer interface; other site 342610005131 D-cysteine desulfhydrase; Validated; Region: PRK03910 342610005132 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 342610005133 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 342610005134 catalytic residue [active] 342610005135 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610005136 metal binding site [ion binding]; metal-binding site 342610005137 active site 342610005138 I-site; other site 342610005139 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 342610005140 Coenzyme A binding pocket [chemical binding]; other site 342610005141 Protein of unknown function (DUF2919); Region: DUF2919; pfam11143 342610005142 Transcriptional regulator [Transcription]; Region: LysR; COG0583 342610005143 Helix-turn-helix domains; Region: HTH; cl00088 342610005144 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 342610005145 dimerization interface [polypeptide binding]; other site 342610005146 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 342610005147 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 342610005148 putative ATP binding site [chemical binding]; other site 342610005149 putative substrate interface [chemical binding]; other site 342610005150 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 342610005151 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 342610005152 Substrate binding site; other site 342610005153 Cupin domain; Region: Cupin_2; cl09118 342610005154 phosphomannomutase CpsG; Provisional; Region: PRK15414 342610005155 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 342610005156 active site 342610005157 substrate binding site [chemical binding]; other site 342610005158 metal binding site [ion binding]; metal-binding site 342610005159 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 342610005160 dimer interface [polypeptide binding]; other site 342610005161 Citrate synthase; Region: Citrate_synt; pfam00285 342610005162 active site 342610005163 citrylCoA binding site [chemical binding]; other site 342610005164 NADH binding [chemical binding]; other site 342610005165 cationic pore residues; other site 342610005166 oxalacetate/citrate binding site [chemical binding]; other site 342610005167 coenzyme A binding site [chemical binding]; other site 342610005168 catalytic triad [active] 342610005169 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 342610005170 Iron-sulfur protein interface; other site 342610005171 proximal quinone binding site [chemical binding]; other site 342610005172 SdhD (CybS) interface [polypeptide binding]; other site 342610005173 proximal heme binding site [chemical binding]; other site 342610005174 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 342610005175 SdhC subunit interface [polypeptide binding]; other site 342610005176 proximal heme binding site [chemical binding]; other site 342610005177 cardiolipin binding site; other site 342610005178 Iron-sulfur protein interface; other site 342610005179 proximal quinone binding site [chemical binding]; other site 342610005180 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 342610005181 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610005182 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 342610005183 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 342610005184 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 342610005185 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 342610005186 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 342610005187 TPP-binding site [chemical binding]; other site 342610005188 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 342610005189 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 342610005190 E3 interaction surface; other site 342610005191 lipoyl attachment site [posttranslational modification]; other site 342610005192 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 342610005193 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 342610005194 E3 interaction surface; other site 342610005195 lipoyl attachment site [posttranslational modification]; other site 342610005196 e3 binding domain; Region: E3_binding; pfam02817 342610005197 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 342610005198 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 342610005199 ATP-grasp domain; Region: ATP-grasp_4; cl03087 342610005200 CoA-ligase; Region: Ligase_CoA; cl02894 342610005201 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 342610005202 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610005203 CoA-ligase; Region: Ligase_CoA; cl02894 342610005204 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 342610005205 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 342610005206 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 342610005207 FAD binding domain; Region: FAD_binding_4; pfam01565 342610005208 Berberine and berberine like; Region: BBE; pfam08031 342610005209 Helix-turn-helix domains; Region: HTH; cl00088 342610005210 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 342610005211 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 342610005212 substrate binding pocket [chemical binding]; other site 342610005213 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 342610005214 membrane-bound complex binding site; other site 342610005215 hinge residues; other site 342610005216 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 342610005217 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 342610005218 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 342610005219 active site pocket [active] 342610005220 oxyanion hole [active] 342610005221 catalytic triad [active] 342610005222 active site nucleophile [active] 342610005223 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610005224 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610005225 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610005226 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 342610005227 catalytic core [active] 342610005228 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 342610005229 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 342610005230 active site 342610005231 Predicted aminoglycoside phosphotransferase [General function prediction only]; Region: COG3173 342610005232 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 342610005233 putative active site [active] 342610005234 putative substrate binding site [chemical binding]; other site 342610005235 ATP binding site [chemical binding]; other site 342610005236 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 342610005237 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 342610005238 NAD(P) binding site [chemical binding]; other site 342610005239 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 342610005240 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 342610005241 TPR motif; other site 342610005242 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 342610005243 binding surface 342610005244 Cupin domain; Region: Cupin_2; cl09118 342610005245 Bacterial protein of unknown function (DUF924); Region: DUF924; cl01561 342610005246 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 342610005247 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 342610005248 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 342610005249 Flagellin N-methylase; Region: FliB; cl00497 342610005250 YHYH protein; Region: YHYH; pfam14240 342610005251 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610005252 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610005253 Transcriptional regulators [Transcription]; Region: PurR; COG1609 342610005254 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 342610005255 DNA binding site [nucleotide binding] 342610005256 domain linker motif; other site 342610005257 Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators; Region: PBP1_CelR; cd06295 342610005258 putative dimerization interface [polypeptide binding]; other site 342610005259 putative ligand binding site [chemical binding]; other site 342610005260 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 342610005261 putative substrate translocation pore; other site 342610005262 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 342610005263 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 342610005264 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610005265 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 342610005266 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_1; cd06238 342610005267 putative active site [active] 342610005268 Zn binding site [ion binding]; other site 342610005269 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 342610005270 Predicted esterase [General function prediction only]; Region: COG0627 342610005271 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 342610005272 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 342610005273 substrate binding site [chemical binding]; other site 342610005274 catalytic Zn binding site [ion binding]; other site 342610005275 NAD binding site [chemical binding]; other site 342610005276 structural Zn binding site [ion binding]; other site 342610005277 dimer interface [polypeptide binding]; other site 342610005278 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 342610005279 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 342610005280 aldose dehydrogenase; Validated; Region: PRK06398 342610005281 classical (c) SDRs; Region: SDR_c; cd05233 342610005282 NAD(P) binding site [chemical binding]; other site 342610005283 active site 342610005284 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 342610005285 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 342610005286 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 342610005287 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 342610005288 FeS/SAM binding site; other site 342610005289 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 342610005290 dimer interface [polypeptide binding]; other site 342610005291 phosphorylation site [posttranslational modification] 342610005292 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 342610005293 ATP binding site [chemical binding]; other site 342610005294 Mg2+ binding site [ion binding]; other site 342610005295 G-X-G motif; other site 342610005296 Response regulator receiver domain; Region: Response_reg; pfam00072 342610005297 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 342610005298 active site 342610005299 phosphorylation site [posttranslational modification] 342610005300 intermolecular recognition site; other site 342610005301 dimerization interface [polypeptide binding]; other site 342610005302 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 342610005303 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610005304 L-lactate permease; Region: Lactate_perm; cl00701 342610005305 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 342610005306 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 342610005307 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610005308 Walker A/P-loop; other site 342610005309 ATP binding site [chemical binding]; other site 342610005310 Q-loop/lid; other site 342610005311 ABC transporter signature motif; other site 342610005312 Walker B; other site 342610005313 D-loop; other site 342610005314 H-loop/switch region; other site 342610005315 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 342610005316 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610005317 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 342610005318 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 342610005319 Sulfatase; Region: Sulfatase; cl10460 342610005320 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 342610005321 Sulfatase; Region: Sulfatase; cl10460 342610005322 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 342610005323 active site 342610005324 Int/Topo IB signature motif; other site 342610005325 DNA binding site [nucleotide binding] 342610005326 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 342610005327 Transposase; Region: DEDD_Tnp_IS110; pfam01548 342610005328 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 342610005329 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 342610005330 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 342610005331 Domain of unknown function (DUF303); Region: DUF303; pfam03629 342610005332 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 342610005333 Domain of unknown function (DUF303); Region: DUF303; pfam03629 342610005334 Domain of unknown function (DUF3291); Region: DUF3291; pfam11695 342610005335 YCII-related domain; Region: YCII; cl00999 342610005336 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 342610005337 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 342610005338 dimer interface [polypeptide binding]; other site 342610005339 Trp docking motif [polypeptide binding]; other site 342610005340 active site 342610005341 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 342610005342 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 342610005343 substrate binding pocket [chemical binding]; other site 342610005344 membrane-bound complex binding site; other site 342610005345 hinge residues; other site 342610005346 Cytochrome c; Region: Cytochrom_C; cl11414 342610005347 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 342610005348 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 342610005349 ligand binding site [chemical binding]; other site 342610005350 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 342610005351 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 342610005352 structural tetrad; other site 342610005353 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 342610005354 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 342610005355 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610005356 Walker A/P-loop; other site 342610005357 ATP binding site [chemical binding]; other site 342610005358 Q-loop/lid; other site 342610005359 ABC transporter signature motif; other site 342610005360 Walker B; other site 342610005361 D-loop; other site 342610005362 H-loop/switch region; other site 342610005363 ABC-2 type transporter; Region: ABC2_membrane; cl11417 342610005364 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610005365 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 342610005366 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610005367 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610005368 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 342610005369 N-terminal plug; other site 342610005370 ligand-binding site [chemical binding]; other site 342610005371 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl15306 342610005372 substrate binding pocket [chemical binding]; other site 342610005373 membrane-bound complex binding site; other site 342610005374 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 342610005375 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 342610005376 dimer interface [polypeptide binding]; other site 342610005377 conserved gate region; other site 342610005378 putative PBP binding loops; other site 342610005379 ABC-ATPase subunit interface; other site 342610005380 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 342610005381 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 342610005382 Walker A/P-loop; other site 342610005383 ATP binding site [chemical binding]; other site 342610005384 Q-loop/lid; other site 342610005385 ABC transporter signature motif; other site 342610005386 Walker B; other site 342610005387 D-loop; other site 342610005388 H-loop/switch region; other site 342610005389 Protein of unknown function (DUF3422); Region: DUF3422; cl02073 342610005390 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610005391 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 342610005392 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 342610005393 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 342610005394 active site 342610005395 phosphorylation site [posttranslational modification] 342610005396 intermolecular recognition site; other site 342610005397 dimerization interface [polypeptide binding]; other site 342610005398 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 342610005399 DNA binding residues [nucleotide binding] 342610005400 dimerization interface [polypeptide binding]; other site 342610005401 PAS fold; Region: PAS_7; pfam12860 342610005402 PAS fold; Region: PAS_7; pfam12860 342610005403 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 342610005404 PAS fold; Region: PAS_4; pfam08448 342610005405 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 342610005406 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 342610005407 dimer interface [polypeptide binding]; other site 342610005408 phosphorylation site [posttranslational modification] 342610005409 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 342610005410 ATP binding site [chemical binding]; other site 342610005411 Mg2+ binding site [ion binding]; other site 342610005412 G-X-G motif; other site 342610005413 Uncharacterized conserved protein [Function unknown]; Region: COG3287 342610005414 FIST N domain; Region: FIST; cl10701 342610005415 FIST C domain; Region: FIST_C; pfam10442 342610005416 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 342610005417 FMN-binding domain; Region: FMN_bind; cl01081 342610005418 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 342610005419 NADH dehydrogenase; Region: NADHdh; cl00469 342610005420 4Fe-4S binding domain; Region: Fer4_5; pfam12801 342610005421 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 342610005422 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 342610005423 NAD(P) binding site [chemical binding]; other site 342610005424 catalytic residues [active] 342610005425 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 342610005426 NADH(P)-binding; Region: NAD_binding_10; pfam13460 342610005427 NAD(P) binding site [chemical binding]; other site 342610005428 putative active site [active] 342610005429 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 342610005430 30S subunit binding site; other site 342610005431 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 342610005432 Helix-turn-helix domains; Region: HTH; cl00088 342610005433 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 342610005434 substrate binding pocket [chemical binding]; other site 342610005435 dimerization interface [polypeptide binding]; other site 342610005436 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 342610005437 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 342610005438 putative dimer interface [polypeptide binding]; other site 342610005439 putative anticodon binding site; other site 342610005440 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 342610005441 homodimer interface [polypeptide binding]; other site 342610005442 motif 1; other site 342610005443 motif 2; other site 342610005444 active site 342610005445 motif 3; other site 342610005446 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 342610005447 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 342610005448 dimer interface [polypeptide binding]; other site 342610005449 pyridoxal 5'-phosphate binding site [chemical binding]; other site 342610005450 catalytic residue [active] 342610005451 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 342610005452 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 342610005453 putative DNA binding site [nucleotide binding]; other site 342610005454 putative Zn2+ binding site [ion binding]; other site 342610005455 Helix-turn-helix domains; Region: HTH; cl00088 342610005456 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 342610005457 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 342610005458 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 342610005459 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 342610005460 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 342610005461 putative active site [active] 342610005462 putative metal binding site [ion binding]; other site 342610005463 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 342610005464 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 342610005465 substrate binding site [chemical binding]; other site 342610005466 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 342610005467 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 342610005468 active site 342610005469 HIGH motif; other site 342610005470 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 342610005471 KMSKS motif; other site 342610005472 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 342610005473 tRNA binding surface [nucleotide binding]; other site 342610005474 anticodon binding site; other site 342610005475 Fic family protein [Function unknown]; Region: COG3177 342610005476 Fic/DOC family; Region: Fic; cl00960 342610005477 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_6; cd07242 342610005478 putative dimer interface [polypeptide binding]; other site 342610005479 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 342610005480 ligand binding site [chemical binding]; other site 342610005481 Zn binding site [ion binding]; other site 342610005482 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 342610005483 N-acetyl-D-glucosamine binding site [chemical binding]; other site 342610005484 catalytic residue [active] 342610005485 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 342610005486 putative peptidoglycan binding site; other site 342610005487 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 342610005488 putative peptidoglycan binding site; other site 342610005489 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 342610005490 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 342610005491 putative peptidoglycan binding site; other site 342610005492 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 342610005493 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 342610005494 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 342610005495 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 342610005496 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 342610005497 active site 342610005498 HIGH motif; other site 342610005499 KMSKS motif; other site 342610005500 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 342610005501 tRNA binding surface [nucleotide binding]; other site 342610005502 anticodon binding site; other site 342610005503 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 342610005504 dimer interface [polypeptide binding]; other site 342610005505 putative tRNA-binding site [nucleotide binding]; other site 342610005506 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 342610005507 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 342610005508 2'-deoxycytidine 5'-triphosphate deaminase; Provisional; Region: PRK07559 342610005509 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 342610005510 trimer interface [polypeptide binding]; other site 342610005511 active site 342610005512 Cupin domain; Region: Cupin_2; cl09118 342610005513 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 342610005514 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610005515 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610005516 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 342610005517 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 342610005518 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 342610005519 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 342610005520 catalytic residues [active] 342610005521 Cupin domain; Region: Cupin_2; cl09118 342610005522 Helix-turn-helix domain; Region: HTH_18; pfam12833 342610005523 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610005524 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 342610005525 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 342610005526 putative substrate translocation pore; other site 342610005527 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 342610005528 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 342610005529 NAD(P) binding site [chemical binding]; other site 342610005530 catalytic residues [active] 342610005531 Peptidase family M1; Region: Peptidase_M1; pfam01433 342610005532 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 342610005533 Zn binding site [ion binding]; other site 342610005534 Domain of unknown function (DUF3358); Region: DUF3358; pfam11838 342610005535 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 342610005536 AMP-binding enzyme; Region: AMP-binding; cl15778 342610005537 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 342610005538 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 342610005539 classical (c) SDRs; Region: SDR_c; cd05233 342610005540 NAD(P) binding site [chemical binding]; other site 342610005541 active site 342610005542 haloalkane dehalogenase; Provisional; Region: PRK00870 342610005543 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 342610005544 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 342610005545 substrate binding site [chemical binding]; other site 342610005546 oxyanion hole (OAH) forming residues; other site 342610005547 trimer interface [polypeptide binding]; other site 342610005548 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610005549 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 342610005550 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 342610005551 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 342610005552 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 342610005553 dimer interface [polypeptide binding]; other site 342610005554 active site 342610005555 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 342610005556 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 342610005557 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 342610005558 active site 342610005559 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 342610005560 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 342610005561 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610005562 metal binding site [ion binding]; metal-binding site 342610005563 active site 342610005564 I-site; other site 342610005565 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 342610005566 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 342610005567 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 342610005568 Helix-turn-helix domains; Region: HTH; cl00088 342610005569 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 342610005570 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 342610005571 substrate binding pocket [chemical binding]; other site 342610005572 membrane-bound complex binding site; other site 342610005573 hinge residues; other site 342610005574 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 342610005575 Major Facilitator Superfamily; Region: MFS_1; pfam07690 342610005576 putative substrate translocation pore; other site 342610005577 Old yellow enzyme (OYE)-related FMN binding domain, group 5. 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_5_FMN; cd04747 342610005578 putative active site [active] 342610005579 putative FMN binding site [chemical binding]; other site 342610005580 putative substrate binding site [chemical binding]; other site 342610005581 putative catalytic residue [active] 342610005582 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 342610005583 Helix-turn-helix domains; Region: HTH; cl00088 342610005584 WHG domain; Region: WHG; pfam13305 342610005585 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 342610005586 RNA/DNA binding site [nucleotide binding]; other site 342610005587 RRM dimerization site [polypeptide binding]; other site 342610005588 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 342610005589 ThiC-associated domain; Region: ThiC-associated; pfam13667 342610005590 ThiC family; Region: ThiC; cl08031 342610005591 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610005592 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 342610005593 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 342610005594 thiS-thiF/thiG interaction site; other site 342610005595 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 342610005596 ThiS interaction site; other site 342610005597 putative active site [active] 342610005598 tetramer interface [polypeptide binding]; other site 342610005599 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 342610005600 substrate binding site [chemical binding]; other site 342610005601 dimer interface [polypeptide binding]; other site 342610005602 ATP binding site [chemical binding]; other site 342610005603 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 342610005604 thiamine phosphate binding site [chemical binding]; other site 342610005605 active site 342610005606 pyrophosphate binding site [ion binding]; other site 342610005607 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 342610005608 thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily; Region: adenyl_thiF; TIGR02356 342610005609 ATP binding site [chemical binding]; other site 342610005610 substrate interface [chemical binding]; other site 342610005611 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 342610005612 active site residue [active] 342610005613 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 342610005614 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 342610005615 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 342610005616 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610005617 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610005618 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610005619 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 342610005620 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610005621 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610005622 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 342610005623 carbohydrate binding site [chemical binding]; other site 342610005624 alpha-1,6-glucosidases, pullulanase-type; Region: pullul_strch; TIGR02103 342610005625 Early set domain associated with the catalytic domain of pullulanase (also called dextrinase and alpha-dextrin endo-1,6-alpha glucosidase); Region: E_set_Pullulanase; cd02860 342610005626 Alpha amylase catalytic domain found in Pullulanase (also called dextrinase; alpha-dextrin endo-1,6-alpha glucosidase), limit dextrinase, and related proteins; Region: AmyAc_Pullulanase_LD-like; cd11341 342610005627 Ca binding site [ion binding]; other site 342610005628 active site 342610005629 catalytic site [active] 342610005630 Domain of unknown function (DUF3372); Region: DUF3372; pfam11852 342610005631 Early set domain associated with the catalytic domain of pullulanase-like proteins; Region: E_set_pullulanase_like; cd02861 342610005632 Early set domain associated with the catalytic domain of pullulanase-like proteins; Region: E_set_pullulanase_like; cd02861 342610005633 Early set domain associated with the catalytic domain of pullulanase-like proteins; Region: E_set_pullulanase_like; cd02861 342610005634 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 342610005635 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 342610005636 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 342610005637 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 342610005638 Transposase; Region: DEDD_Tnp_IS110; pfam01548 342610005639 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 342610005640 Protein with unknown function (DUF469); Region: DUF469; cl01237 342610005641 Protein of unknown function (DUF3465); Region: DUF3465; pfam11948 342610005642 polyamine oxidase; Region: PLN02676 342610005643 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610005644 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 342610005645 Cytochrome oxidase complex assembly protein 1; Region: Coa1; cl14904 342610005646 Protein of unknown function (DUF1451); Region: DUF1451; pfam07295 342610005647 Transcriptional regulator [Transcription]; Region: IclR; COG1414 342610005648 Helix-turn-helix domains; Region: HTH; cl00088 342610005649 Bacterial transcriptional regulator; Region: IclR; pfam01614 342610005650 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 342610005651 SapC; Region: SapC; pfam07277 342610005652 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610005653 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610005654 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610005655 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 342610005656 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 342610005657 active site 342610005658 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 342610005659 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 342610005660 substrate binding site [chemical binding]; other site 342610005661 ATP binding site [chemical binding]; other site 342610005662 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 342610005663 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 342610005664 Beta-galactosidase; Region: Glyco_hydro_42; cl03154 342610005665 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 342610005666 Leucine rich repeat; Region: LRR_8; pfam13855 342610005667 Substrate binding site [chemical binding]; other site 342610005668 Leucine rich repeat; Region: LRR_8; pfam13855 342610005669 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 342610005670 active site 342610005671 ATP binding site [chemical binding]; other site 342610005672 substrate binding site [chemical binding]; other site 342610005673 activation loop (A-loop); other site 342610005674 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 342610005675 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 342610005676 dimer interface [polypeptide binding]; other site 342610005677 active site 342610005678 heme binding site [chemical binding]; other site 342610005679 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 342610005680 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610005681 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 342610005682 NAD(P) binding site [chemical binding]; other site 342610005683 active site 342610005684 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 342610005685 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 342610005686 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 342610005687 homoserine O-acetyltransferase; Provisional; Region: PRK06765 342610005688 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 342610005689 Citrate transporter; Region: CitMHS; pfam03600 342610005690 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 342610005691 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 342610005692 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 342610005693 N-terminal plug; other site 342610005694 ligand-binding site [chemical binding]; other site 342610005695 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 342610005696 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 342610005697 active site 342610005698 phosphorylation site [posttranslational modification] 342610005699 intermolecular recognition site; other site 342610005700 dimerization interface [polypeptide binding]; other site 342610005701 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 342610005702 DNA binding residues [nucleotide binding] 342610005703 dimerization interface [polypeptide binding]; other site 342610005704 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 342610005705 Predicted membrane protein (DUF2214); Region: DUF2214; cl01427 342610005706 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 342610005707 Sodium:solute symporter family; Region: SSF; cl00456 342610005708 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 342610005709 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 342610005710 PAS fold; Region: PAS_7; pfam12860 342610005711 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 342610005712 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 342610005713 ATP binding site [chemical binding]; other site 342610005714 Mg2+ binding site [ion binding]; other site 342610005715 G-X-G motif; other site 342610005716 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 342610005717 active site 342610005718 phosphorylation site [posttranslational modification] 342610005719 intermolecular recognition site; other site 342610005720 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 342610005721 dimer interface [polypeptide binding]; other site 342610005722 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 342610005723 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 342610005724 chaperone protein DnaJ; Provisional; Region: PRK10767 342610005725 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 342610005726 HSP70 interaction site [polypeptide binding]; other site 342610005727 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 342610005728 substrate binding site [polypeptide binding]; other site 342610005729 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 342610005730 Zn binding sites [ion binding]; other site 342610005731 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 342610005732 dimer interface [polypeptide binding]; other site 342610005733 Cytochrome C'; Region: Cytochrom_C_2; cl01610 342610005734 GAF domain; Region: GAF; cl15785 342610005735 ProP expression regulator; Provisional; Region: PRK04950 342610005736 FinO bacterial conjugation repressor domain; the basic protein FinO is part of the the two component FinOP system which is responsible for repressing bacterial conjugation; the FinOP system represses the transfer (tra) operon of the F-plasmid which...; Region: FinO_conjug_rep; cl15270 342610005737 carboxy-terminal protease; Provisional; Region: PRK11186 342610005738 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 342610005739 protein binding site [polypeptide binding]; other site 342610005740 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 342610005741 Catalytic dyad [active] 342610005742 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 342610005743 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 342610005744 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 342610005745 aminopeptidase N; Provisional; Region: pepN; PRK14015 342610005746 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 342610005747 active site 342610005748 Zn binding site [ion binding]; other site 342610005749 Protein of unknown function (DUF2835); Region: DUF2835; pfam11197 342610005750 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 342610005751 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 342610005752 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 342610005753 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 342610005754 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 342610005755 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 342610005756 quinone interaction residues [chemical binding]; other site 342610005757 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 342610005758 active site 342610005759 catalytic residues [active] 342610005760 FMN binding site [chemical binding]; other site 342610005761 substrate binding site [chemical binding]; other site 342610005762 Protein of unknown function (DUF1379); Region: DUF1379; pfam07126 342610005763 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 342610005764 THUMP domain; Region: THUMP; cl12076 342610005765 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 342610005766 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 342610005767 putative RNA binding site [nucleotide binding]; other site 342610005768 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 342610005769 S-adenosylmethionine binding site [chemical binding]; other site 342610005770 ABC transporter ATPase component; Reviewed; Region: PRK11147 342610005771 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610005772 Walker A/P-loop; other site 342610005773 ATP binding site [chemical binding]; other site 342610005774 Q-loop/lid; other site 342610005775 ABC transporter signature motif; other site 342610005776 Walker B; other site 342610005777 D-loop; other site 342610005778 H-loop/switch region; other site 342610005779 ABC transporter; Region: ABC_tran_2; pfam12848 342610005780 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 342610005781 Protein of unknown function (DUF3466); Region: DUF3466; pfam11949 342610005782 Ribosome modulation factor; Region: RMF; cl01207 342610005783 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 342610005784 active site 1 [active] 342610005785 dimer interface [polypeptide binding]; other site 342610005786 active site 2 [active] 342610005787 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 342610005788 SEC-C motif; Region: SEC-C; pfam02810 342610005789 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 342610005790 TMAO/DMSO reductase; Reviewed; Region: PRK05363 342610005791 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 342610005792 Moco binding site; other site 342610005793 metal coordination site [ion binding]; other site 342610005794 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK05318 342610005795 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 342610005796 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 342610005797 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 342610005798 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 342610005799 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 342610005800 non-specific DNA binding site [nucleotide binding]; other site 342610005801 salt bridge; other site 342610005802 sequence-specific DNA binding site [nucleotide binding]; other site 342610005803 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 342610005804 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 342610005805 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 342610005806 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 342610005807 active site 342610005808 catalytic residues [active] 342610005809 DNA binding site [nucleotide binding] 342610005810 Int/Topo IB signature motif; other site 342610005811 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 342610005812 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 342610005813 DNA binding residues [nucleotide binding] 342610005814 dimer interface [polypeptide binding]; other site 342610005815 putative metal binding site [ion binding]; other site 342610005816 Cation efflux family; Region: Cation_efflux; cl00316 342610005817 Protein of unknown function (DUF3703); Region: DUF3703; pfam12487 342610005818 Cation efflux family; Region: Cation_efflux; cl00316 342610005819 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 342610005820 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 342610005821 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 342610005822 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 342610005823 carboxyltransferase (CT) interaction site; other site 342610005824 biotinylation site [posttranslational modification]; other site 342610005825 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 342610005826 heavy metal efflux pump (cobalt-zinc-cadmium); Region: 2A0601; TIGR00914 342610005827 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 342610005828 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 342610005829 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 342610005830 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 342610005831 pyridoxal 5'-phosphate binding site [chemical binding]; other site 342610005832 homodimer interface [polypeptide binding]; other site 342610005833 catalytic residue [active] 342610005834 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 342610005835 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 342610005836 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 342610005837 tetramer interface [polypeptide binding]; other site 342610005838 TPP-binding site [chemical binding]; other site 342610005839 heterodimer interface [polypeptide binding]; other site 342610005840 phosphorylation loop region [posttranslational modification] 342610005841 3-methyl-2-oxobutanate dehydrogenase; Provisional; Region: PTZ00182 342610005842 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 342610005843 alpha subunit interface [polypeptide binding]; other site 342610005844 TPP binding site [chemical binding]; other site 342610005845 heterodimer interface [polypeptide binding]; other site 342610005846 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 342610005847 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 342610005848 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 342610005849 E3 interaction surface; other site 342610005850 lipoyl attachment site [posttranslational modification]; other site 342610005851 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 342610005852 E3 interaction surface; other site 342610005853 lipoyl attachment site [posttranslational modification]; other site 342610005854 e3 binding domain; Region: E3_binding; pfam02817 342610005855 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 342610005856 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 342610005857 Catalytic domain of Protein Kinases; Region: PKc; cd00180 342610005858 active site 342610005859 ATP binding site [chemical binding]; other site 342610005860 substrate binding site [chemical binding]; other site 342610005861 activation loop (A-loop); other site 342610005862 acyl-CoA thioesterase II; Provisional; Region: PRK10526 342610005863 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 342610005864 active site 342610005865 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 342610005866 catalytic triad [active] 342610005867 dimer interface [polypeptide binding]; other site 342610005868 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 342610005869 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 342610005870 trimer interface [polypeptide binding]; other site 342610005871 putative metal binding site [ion binding]; other site 342610005872 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 342610005873 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 342610005874 homodimer interface [polypeptide binding]; other site 342610005875 pyridoxal 5'-phosphate binding site [chemical binding]; other site 342610005876 catalytic residue [active] 342610005877 Putative rhamnosyl transferase; Region: Rhamno_transf; pfam11316 342610005878 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 342610005879 Helix-turn-helix domains; Region: HTH; cl00088 342610005880 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 342610005881 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610005882 Walker A/P-loop; other site 342610005883 ATP binding site [chemical binding]; other site 342610005884 Q-loop/lid; other site 342610005885 ABC transporter signature motif; other site 342610005886 Walker B; other site 342610005887 D-loop; other site 342610005888 H-loop/switch region; other site 342610005889 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610005890 Walker A/P-loop; other site 342610005891 ATP binding site [chemical binding]; other site 342610005892 Q-loop/lid; other site 342610005893 ABC transporter signature motif; other site 342610005894 Walker B; other site 342610005895 D-loop; other site 342610005896 H-loop/switch region; other site 342610005897 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 342610005898 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 342610005899 Glutaminase; Region: Glutaminase; cl00907 342610005900 Flavin Reductases; Region: FlaRed; cl00801 342610005901 Cupin domain; Region: Cupin_2; cl09118 342610005902 allantoate amidohydrolase; Reviewed; Region: PRK09290 342610005903 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 342610005904 active site 342610005905 metal binding site [ion binding]; metal-binding site 342610005906 dimer interface [polypeptide binding]; other site 342610005907 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 342610005908 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 342610005909 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 342610005910 catalytic residue [active] 342610005911 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 342610005912 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 342610005913 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 342610005914 Amidase; Region: Amidase; cl11426 342610005915 Class II fumarases; Region: Fumarase_classII; cd01362 342610005916 fumarate hydratase; Reviewed; Region: fumC; PRK00485 342610005917 active site 342610005918 tetramer interface [polypeptide binding]; other site 342610005919 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 342610005920 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 342610005921 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 342610005922 putative active site [active] 342610005923 NAD-dependent deacetylase; Provisional; Region: PRK00481 342610005924 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 342610005925 NAD+ binding site [chemical binding]; other site 342610005926 substrate binding site [chemical binding]; other site 342610005927 Zn binding site [ion binding]; other site 342610005928 LysE type translocator; Region: LysE; cl00565 342610005929 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 342610005930 Protein of unknown function (DUF2987); Region: DUF2987; pfam11205 342610005931 hypothetical protein; Provisional; Region: PRK10279 342610005932 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 342610005933 active site 342610005934 nucleophile elbow; other site 342610005935 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 342610005936 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 342610005937 Ligand Binding Site [chemical binding]; other site 342610005938 universal stress protein UspE; Provisional; Region: PRK11175 342610005939 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 342610005940 Ligand Binding Site [chemical binding]; other site 342610005941 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 342610005942 Ligand Binding Site [chemical binding]; other site 342610005943 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 342610005944 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 342610005945 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 342610005946 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 342610005947 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 342610005948 metal-binding site [ion binding] 342610005949 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 342610005950 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 342610005951 FixH; Region: FixH; cl01254 342610005952 Succinate:quinone oxidoreductase (SQR) and Quinol:fumarate reductase (QFR) family, transmembrane subunits; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol, while QFR catalyzes the reverse reaction. SQR; Region: SQR_QFR_TM; cl00881 342610005953 Iron-sulfur protein interface; other site 342610005954 proximal heme binding site [chemical binding]; other site 342610005955 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 342610005956 Cytochrome c; Region: Cytochrom_C; cl11414 342610005957 Cytochrome c; Region: Cytochrom_C; cl11414 342610005958 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 342610005959 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 342610005960 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 342610005961 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 342610005962 Low-spin heme binding site [chemical binding]; other site 342610005963 Putative water exit pathway; other site 342610005964 Binuclear center (active site) [active] 342610005965 Putative proton exit pathway; other site 342610005966 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 342610005967 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 342610005968 heme binding site [chemical binding]; other site 342610005969 ferroxidase pore; other site 342610005970 ferroxidase diiron center [ion binding]; other site 342610005971 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 342610005972 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 342610005973 heme binding site [chemical binding]; other site 342610005974 ferroxidase pore; other site 342610005975 ferroxidase diiron center [ion binding]; other site 342610005976 Conserved TM helix; Region: TM_helix; pfam05552 342610005977 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 342610005978 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 342610005979 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 342610005980 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 342610005981 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 342610005982 ligand binding site [chemical binding]; other site 342610005983 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cd00541 342610005984 dimerization interface [polypeptide binding]; other site 342610005985 substrate binding site [chemical binding]; other site 342610005986 active site 342610005987 calcium binding site [ion binding]; other site 342610005988 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 342610005989 dimer interface [polypeptide binding]; other site 342610005990 phosphorylation site [posttranslational modification] 342610005991 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 342610005992 ATP binding site [chemical binding]; other site 342610005993 Mg2+ binding site [ion binding]; other site 342610005994 G-X-G motif; other site 342610005995 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 342610005996 Response regulator receiver domain; Region: Response_reg; pfam00072 342610005997 active site 342610005998 phosphorylation site [posttranslational modification] 342610005999 intermolecular recognition site; other site 342610006000 dimerization interface [polypeptide binding]; other site 342610006001 Response regulator receiver domain; Region: Response_reg; pfam00072 342610006002 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 342610006003 active site 342610006004 phosphorylation site [posttranslational modification] 342610006005 intermolecular recognition site; other site 342610006006 dimerization interface [polypeptide binding]; other site 342610006007 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 342610006008 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 342610006009 ligand binding site; other site 342610006010 oligomer interface; other site 342610006011 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 342610006012 dimer interface [polypeptide binding]; other site 342610006013 N-terminal domain interface [polypeptide binding]; other site 342610006014 sulfate 1 binding site; other site 342610006015 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 342610006016 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 342610006017 ligand binding site [chemical binding]; other site 342610006018 flexible hinge region; other site 342610006019 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 342610006020 putative switch regulator; other site 342610006021 non-specific DNA interactions [nucleotide binding]; other site 342610006022 DNA binding site [nucleotide binding] 342610006023 sequence specific DNA binding site [nucleotide binding]; other site 342610006024 putative cAMP binding site [chemical binding]; other site 342610006025 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 342610006026 active site residue [active] 342610006027 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 342610006028 active site 342610006029 ADP/pyrophosphate binding site [chemical binding]; other site 342610006030 dimerization interface [polypeptide binding]; other site 342610006031 allosteric effector site; other site 342610006032 fructose-1,6-bisphosphate binding site; other site 342610006033 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 342610006034 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610006035 Response regulator receiver domain; Region: Response_reg; pfam00072 342610006036 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 342610006037 active site 342610006038 phosphorylation site [posttranslational modification] 342610006039 intermolecular recognition site; other site 342610006040 dimerization interface [polypeptide binding]; other site 342610006041 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610006042 metal binding site [ion binding]; metal-binding site 342610006043 active site 342610006044 I-site; other site 342610006045 Helix-Turn-Helix DNA binding domain of putative Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR_unk; cd04787 342610006046 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 342610006047 DNA binding residues [nucleotide binding] 342610006048 dimer interface [polypeptide binding]; other site 342610006049 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 342610006050 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 342610006051 metal-binding site [ion binding] 342610006052 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 342610006053 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 342610006054 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 342610006055 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 342610006056 Ligand Binding Site [chemical binding]; other site 342610006057 Response regulator receiver domain; Region: Response_reg; pfam00072 342610006058 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 342610006059 active site 342610006060 phosphorylation site [posttranslational modification] 342610006061 intermolecular recognition site; other site 342610006062 dimerization interface [polypeptide binding]; other site 342610006063 response regulator FixJ; Provisional; Region: fixJ; PRK09390 342610006064 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 342610006065 active site 342610006066 phosphorylation site [posttranslational modification] 342610006067 intermolecular recognition site; other site 342610006068 dimerization interface [polypeptide binding]; other site 342610006069 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 342610006070 DNA binding residues [nucleotide binding] 342610006071 dimerization interface [polypeptide binding]; other site 342610006072 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 342610006073 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 342610006074 putative active site [active] 342610006075 heme pocket [chemical binding]; other site 342610006076 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 342610006077 dimer interface [polypeptide binding]; other site 342610006078 phosphorylation site [posttranslational modification] 342610006079 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 342610006080 ATP binding site [chemical binding]; other site 342610006081 Mg2+ binding site [ion binding]; other site 342610006082 G-X-G motif; other site 342610006083 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 342610006084 Cation efflux family; Region: Cation_efflux; cl00316 342610006085 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 342610006086 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 342610006087 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 342610006088 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 342610006089 HSP70 interaction site [polypeptide binding]; other site 342610006090 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 342610006091 substrate binding site [polypeptide binding]; other site 342610006092 dimer interface [polypeptide binding]; other site 342610006093 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 342610006094 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 342610006095 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 342610006096 universal stress protein UspE; Provisional; Region: PRK11175 342610006097 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 342610006098 Ligand Binding Site [chemical binding]; other site 342610006099 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 342610006100 Ligand Binding Site [chemical binding]; other site 342610006101 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 342610006102 putative active site [active] 342610006103 heme pocket [chemical binding]; other site 342610006104 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 342610006105 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 342610006106 dimer interface [polypeptide binding]; other site 342610006107 phosphorylation site [posttranslational modification] 342610006108 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 342610006109 ATP binding site [chemical binding]; other site 342610006110 Mg2+ binding site [ion binding]; other site 342610006111 G-X-G motif; other site 342610006112 Response regulator receiver domain; Region: Response_reg; pfam00072 342610006113 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 342610006114 active site 342610006115 phosphorylation site [posttranslational modification] 342610006116 intermolecular recognition site; other site 342610006117 dimerization interface [polypeptide binding]; other site 342610006118 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 342610006119 putative DNA binding site [nucleotide binding]; other site 342610006120 putative Zn2+ binding site [ion binding]; other site 342610006121 Predicted transporter component [General function prediction only]; Region: COG2391 342610006122 Sulphur transport; Region: Sulf_transp; cl01018 342610006123 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 342610006124 Predicted transporter component [General function prediction only]; Region: COG2391 342610006125 Protein of unknown function (DUF2805); Region: DUF2805; cl11923 342610006126 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 342610006127 catalytic residues [active] 342610006128 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610006129 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 342610006130 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 342610006131 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 342610006132 Int/Topo IB signature motif; other site 342610006133 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 342610006134 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 342610006135 Trp docking motif [polypeptide binding]; other site 342610006136 putative active site [active] 342610006137 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 342610006138 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 342610006139 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 342610006140 catalytic site [active] 342610006141 active site 342610006142 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 342610006143 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 342610006144 active site 342610006145 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 342610006146 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610006147 Walker A motif; other site 342610006148 ATP binding site [chemical binding]; other site 342610006149 Walker B motif; other site 342610006150 thymidylate kinase; Validated; Region: tmk; PRK00698 342610006151 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 342610006152 TMP-binding site; other site 342610006153 ATP-binding site [chemical binding]; other site 342610006154 YceG-like family; Region: YceG; pfam02618 342610006155 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 342610006156 dimerization interface [polypeptide binding]; other site 342610006157 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 342610006158 pyridoxal 5'-phosphate binding site [chemical binding]; other site 342610006159 catalytic residue [active] 342610006160 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 342610006161 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 342610006162 dimer interface [polypeptide binding]; other site 342610006163 active site 342610006164 Phosphopantetheine attachment site; Region: PP-binding; cl09936 342610006165 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 342610006166 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 342610006167 NAD(P) binding site [chemical binding]; other site 342610006168 homotetramer interface [polypeptide binding]; other site 342610006169 homodimer interface [polypeptide binding]; other site 342610006170 active site 342610006171 Acyl transferase domain; Region: Acyl_transf_1; cl08282 342610006172 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 342610006173 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 342610006174 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 342610006175 dimer interface [polypeptide binding]; other site 342610006176 active site 342610006177 CoA binding pocket [chemical binding]; other site 342610006178 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 342610006179 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 342610006180 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 342610006181 Maf-like protein; Region: Maf; pfam02545 342610006182 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 342610006183 active site 342610006184 dimer interface [polypeptide binding]; other site 342610006185 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 342610006186 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 342610006187 NADP binding site [chemical binding]; other site 342610006188 active site 342610006189 putative substrate binding site [chemical binding]; other site 342610006190 Cupin domain; Region: Cupin_2; cl09118 342610006191 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 342610006192 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 342610006193 substrate binding site; other site 342610006194 tetramer interface; other site 342610006195 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 342610006196 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 342610006197 NAD binding site [chemical binding]; other site 342610006198 substrate binding site [chemical binding]; other site 342610006199 homodimer interface [polypeptide binding]; other site 342610006200 active site 342610006201 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 342610006202 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 342610006203 RNA binding surface [nucleotide binding]; other site 342610006204 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 342610006205 active site 342610006206 ribonuclease E; Reviewed; Region: rne; PRK10811 342610006207 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 342610006208 homodimer interface [polypeptide binding]; other site 342610006209 oligonucleotide binding site [chemical binding]; other site 342610006210 ribonuclease E; Reviewed; Region: rne; PRK10811 342610006211 helicase 45; Provisional; Region: PTZ00424 342610006212 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 342610006213 ATP binding site [chemical binding]; other site 342610006214 Mg++ binding site [ion binding]; other site 342610006215 motif III; other site 342610006216 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 342610006217 nucleotide binding region [chemical binding]; other site 342610006218 ATP-binding site [chemical binding]; other site 342610006219 Dicarboxylate transport; Region: DctA-YdbH; cl14674 342610006220 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 342610006221 Protein of unknown function (DUF1318); Region: DUF1318; cl01547 342610006222 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 342610006223 classical (c) SDRs; Region: SDR_c; cd05233 342610006224 NAD(P) binding site [chemical binding]; other site 342610006225 active site 342610006226 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 342610006227 classical (c) SDRs; Region: SDR_c; cd05233 342610006228 NAD(P) binding site [chemical binding]; other site 342610006229 active site 342610006230 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 342610006231 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 342610006232 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 342610006233 active site 342610006234 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 342610006235 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 342610006236 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 342610006237 conserved cys residue [active] 342610006238 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610006239 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610006240 N-terminal Early set domain associated with the catalytic domain of isoamylase-like (also called glycogen 6-glucanohydrolase) proteins; Region: E_set_Isoamylase_like_N; cd07184 342610006241 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 342610006242 Beta-galactosidase; Region: Glyco_hydro_42; cl03154 342610006243 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 342610006244 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 342610006245 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 342610006246 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 342610006247 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 342610006248 Ligand binding site [chemical binding]; other site 342610006249 Electron transfer flavoprotein domain; Region: ETF; pfam01012 342610006250 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610006251 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 342610006252 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 342610006253 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 342610006254 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 342610006255 DNA binding protein, nucleoid-associated; Provisional; Region: PRK10328 342610006256 acyl-CoA esterase; Provisional; Region: PRK10673 342610006257 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 342610006258 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 342610006259 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 342610006260 ferric uptake regulator; Provisional; Region: fur; PRK09462 342610006261 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 342610006262 metal binding site 2 [ion binding]; metal-binding site 342610006263 putative DNA binding helix; other site 342610006264 metal binding site 1 [ion binding]; metal-binding site 342610006265 dimer interface [polypeptide binding]; other site 342610006266 structural Zn2+ binding site [ion binding]; other site 342610006267 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 342610006268 dimer interface [polypeptide binding]; other site 342610006269 conserved gate region; other site 342610006270 putative PBP binding loops; other site 342610006271 ABC-ATPase subunit interface; other site 342610006272 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 342610006273 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 342610006274 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 342610006275 MoaE homodimer interface [polypeptide binding]; other site 342610006276 MoaD interaction [polypeptide binding]; other site 342610006277 active site residues [active] 342610006278 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 342610006279 MoaE interaction surface [polypeptide binding]; other site 342610006280 MoeB interaction surface [polypeptide binding]; other site 342610006281 thiocarboxylated glycine; other site 342610006282 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 342610006283 trimer interface [polypeptide binding]; other site 342610006284 dimer interface [polypeptide binding]; other site 342610006285 putative active site [active] 342610006286 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 342610006287 MPT binding site; other site 342610006288 trimer interface [polypeptide binding]; other site 342610006289 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 342610006290 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 342610006291 GTP binding site; other site 342610006292 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 342610006293 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 342610006294 FeS/SAM binding site; other site 342610006295 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 342610006296 D-glycerate 3-kinase; Region: PLN02796 342610006297 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610006298 active site 342610006299 mannosyl-3-phosphoglycerate phosphatase; Reviewed; Region: PRK00192 342610006300 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 342610006301 active site 342610006302 motif I; other site 342610006303 motif II; other site 342610006304 putative glucosyl-3-phosphoglycerate synthase; Provisional; Region: PRK13915 342610006305 Alpha amylase catalytic domain found in sucrose phosphorylase-like proteins (also called sucrose glucosyltransferase, disaccharide glucosyltransferase, and sucrose-phosphate alpha-D glucosyltransferase); Region: AmyAc_Sucrose_phosphorylase-like_1; cd11356 342610006306 active site 342610006307 homodimer interface [polypeptide binding]; other site 342610006308 catalytic site [active] 342610006309 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl08302 342610006310 EF-hand domain pair; Region: EF_hand_5; pfam13499 342610006311 pseudo EF-hand loop; other site 342610006312 peptide binding pocket; other site 342610006313 Ca2+ binding site [ion binding]; other site 342610006314 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 342610006315 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 342610006316 NAD(P) binding site [chemical binding]; other site 342610006317 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 342610006318 PUA domain; Region: PUA; cl00607 342610006319 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 342610006320 putative RNA binding site [nucleotide binding]; other site 342610006321 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 342610006322 S-adenosylmethionine binding site [chemical binding]; other site 342610006323 PilZ domain; Region: PilZ; cl01260 342610006324 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 342610006325 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 342610006326 ATP binding site [chemical binding]; other site 342610006327 putative Mg++ binding site [ion binding]; other site 342610006328 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 342610006329 nucleotide binding region [chemical binding]; other site 342610006330 ATP-binding site [chemical binding]; other site 342610006331 Helicase associated domain (HA2); Region: HA2; cl04503 342610006332 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 342610006333 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 342610006334 FOG: CBS domain [General function prediction only]; Region: COG0517 342610006335 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_16; cd04629 342610006336 exonuclease I; Provisional; Region: sbcB; PRK11779 342610006337 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 342610006338 active site 342610006339 catalytic site [active] 342610006340 substrate binding site [chemical binding]; other site 342610006341 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 342610006342 Protein of unknown function (DUF342); Region: DUF342; pfam03961 342610006343 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 342610006344 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610006345 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 342610006346 catalytic residues [active] 342610006347 dimer interface [polypeptide binding]; other site 342610006348 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 342610006349 S-adenosylmethionine binding site [chemical binding]; other site 342610006350 Uncharacterized conserved protein [Function unknown]; Region: COG0327 342610006351 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 342610006352 DNA photolyase; Region: DNA_photolyase; pfam00875 342610006353 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 342610006354 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 342610006355 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610006356 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610006357 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610006358 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 342610006359 putative inner membrane peptidase; Provisional; Region: PRK11778 342610006360 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 342610006361 tandem repeat interface [polypeptide binding]; other site 342610006362 oligomer interface [polypeptide binding]; other site 342610006363 active site residues [active] 342610006364 extracellular lipase, Pla-1/cef family; Region: lipase_Pla1_cef; TIGR03502 342610006365 Bacterial virulence factor lipase N-terminal; Region: Lipase_bact_N; pfam12262 342610006366 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610006367 short chain dehydrogenase; Provisional; Region: PRK08703 342610006368 NAD(P) binding site [chemical binding]; other site 342610006369 active site 342610006370 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 342610006371 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 342610006372 active site 342610006373 HIGH motif; other site 342610006374 nucleotide binding site [chemical binding]; other site 342610006375 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 342610006376 KMSKS motif; other site 342610006377 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 342610006378 Transcriptional regulators [Transcription]; Region: PurR; COG1609 342610006379 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 342610006380 DNA binding site [nucleotide binding] 342610006381 domain linker motif; other site 342610006382 Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators; Region: PBP1_CelR; cd06295 342610006383 putative dimerization interface [polypeptide binding]; other site 342610006384 putative ligand binding site [chemical binding]; other site 342610006385 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_2; cd11339 342610006386 active site 342610006387 catalytic site [active] 342610006388 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 342610006389 GPH family sucrose/H+ symporter; Region: GPH_sucrose; TIGR01301 342610006390 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 342610006391 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610006392 metal binding site [ion binding]; metal-binding site 342610006393 active site 342610006394 I-site; other site 342610006395 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 342610006396 active site 342610006397 Rhomboid family; Region: Rhomboid; cl11446 342610006398 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 342610006399 ArsC family; Region: ArsC; pfam03960 342610006400 putative catalytic residues [active] 342610006401 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 342610006402 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 342610006403 metal binding site [ion binding]; metal-binding site 342610006404 dimer interface [polypeptide binding]; other site 342610006405 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 342610006406 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 342610006407 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 342610006408 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 342610006409 putative active site [active] 342610006410 Zn binding site [ion binding]; other site 342610006411 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610006412 metal binding site [ion binding]; metal-binding site 342610006413 active site 342610006414 I-site; other site 342610006415 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 342610006416 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 342610006417 homodimer interface [polypeptide binding]; other site 342610006418 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 342610006419 active site pocket [active] 342610006420 phosphoglucomutase; Validated; Region: PRK07564 342610006421 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 342610006422 active site 342610006423 substrate binding site [chemical binding]; other site 342610006424 metal binding site [ion binding]; metal-binding site 342610006425 SeqA protein; Region: SeqA; cl11470 342610006426 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 342610006427 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 342610006428 Protein of unknown function (DUF423); Region: DUF423; cl01008 342610006429 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG3571 342610006430 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 342610006431 Helix-turn-helix domains; Region: HTH; cl00088 342610006432 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 342610006433 dimerization interface [polypeptide binding]; other site 342610006434 substrate binding pocket [chemical binding]; other site 342610006435 NeuB family; Region: NeuB; cl00496 342610006436 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 342610006437 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 342610006438 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 342610006439 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 342610006440 FeS/SAM binding site; other site 342610006441 TRAM domain; Region: TRAM; cl01282 342610006442 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 342610006443 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610006444 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 342610006445 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 342610006446 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 342610006447 Transporter associated domain; Region: CorC_HlyC; cl08393 342610006448 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 342610006449 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 342610006450 putative active site [active] 342610006451 catalytic triad [active] 342610006452 putative dimer interface [polypeptide binding]; other site 342610006453 EamA-like transporter family; Region: EamA; cl01037 342610006454 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 342610006455 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 342610006456 intracellular protease, PfpI family; Region: PfpI; TIGR01382 342610006457 proposed catalytic triad [active] 342610006458 conserved cys residue [active] 342610006459 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 342610006460 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 342610006461 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 342610006462 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 342610006463 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 342610006464 ATP-grasp domain; Region: ATP-grasp_4; cl03087 342610006465 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 342610006466 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 342610006467 ATP-grasp domain; Region: ATP-grasp_4; cl03087 342610006468 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 342610006469 IMP binding site; other site 342610006470 dimer interface [polypeptide binding]; other site 342610006471 interdomain contacts; other site 342610006472 partial ornithine binding site; other site 342610006473 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 342610006474 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 342610006475 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 342610006476 catalytic site [active] 342610006477 subunit interface [polypeptide binding]; other site 342610006478 dihydrodipicolinate reductase; Provisional; Region: PRK00048 342610006479 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610006480 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 342610006481 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 342610006482 Helix-turn-helix domains; Region: HTH; cl00088 342610006483 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 342610006484 Proline dehydrogenase; Region: Pro_dh; cl03282 342610006485 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 342610006486 Glutamate binding site [chemical binding]; other site 342610006487 NAD binding site [chemical binding]; other site 342610006488 catalytic residues [active] 342610006489 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 342610006490 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 342610006491 Protein of unknown function (DUF541); Region: SIMPL; cl01077 342610006492 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 342610006493 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 342610006494 active site residue [active] 342610006495 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 342610006496 active site residue [active] 342610006497 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 342610006498 active site 342610006499 xanthine permease; Region: pbuX; TIGR03173 342610006500 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 342610006501 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 342610006502 active site 342610006503 putative substrate binding pocket [chemical binding]; other site 342610006504 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610006505 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610006506 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 342610006507 Cupin superfamily (DUF985); Region: Cupin_5; cl01418 342610006508 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 342610006509 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 342610006510 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 342610006511 carboxyltransferase (CT) interaction site; other site 342610006512 biotinylation site [posttranslational modification]; other site 342610006513 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 342610006514 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 342610006515 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 342610006516 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 342610006517 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 342610006518 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 342610006519 active site 342610006520 catalytic tetrad [active] 342610006521 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 342610006522 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 342610006523 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 342610006524 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 342610006525 Protein export membrane protein; Region: SecD_SecF; cl14618 342610006526 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 342610006527 The MopB_1 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. These members belong to...; Region: MopB_1; cd02762 342610006528 putative [Fe4-S4] binding site [ion binding]; other site 342610006529 putative molybdopterin cofactor binding site [chemical binding]; other site 342610006530 The MopB_CT_1 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_1; cd02782 342610006531 putative molybdopterin cofactor binding site; other site 342610006532 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 342610006533 Protein of unknown function (DUF1272); Region: DUF1272; pfam06906 342610006534 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 342610006535 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 342610006536 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 342610006537 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 342610006538 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 342610006539 Walker A/P-loop; other site 342610006540 ATP binding site [chemical binding]; other site 342610006541 Q-loop/lid; other site 342610006542 ABC transporter signature motif; other site 342610006543 Walker B; other site 342610006544 D-loop; other site 342610006545 H-loop/switch region; other site 342610006546 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 342610006547 FtsX-like permease family; Region: FtsX; cl15850 342610006548 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 342610006549 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 342610006550 FtsX-like permease family; Region: FtsX; cl15850 342610006551 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 342610006552 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 342610006553 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 342610006554 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610006555 metal binding site [ion binding]; metal-binding site 342610006556 active site 342610006557 I-site; other site 342610006558 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 342610006559 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 342610006560 PAS domain; Region: PAS_9; pfam13426 342610006561 putative active site [active] 342610006562 heme pocket [chemical binding]; other site 342610006563 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 342610006564 dimer interface [polypeptide binding]; other site 342610006565 putative CheW interface [polypeptide binding]; other site 342610006566 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 342610006567 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 342610006568 active site 342610006569 phosphorylation site [posttranslational modification] 342610006570 intermolecular recognition site; other site 342610006571 dimerization interface [polypeptide binding]; other site 342610006572 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 342610006573 Zn2+ binding site [ion binding]; other site 342610006574 Mg2+ binding site [ion binding]; other site 342610006575 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 342610006576 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 342610006577 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 342610006578 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 342610006579 PAS domain S-box; Region: sensory_box; TIGR00229 342610006580 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 342610006581 PAS domain; Region: PAS_9; pfam13426 342610006582 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 342610006583 putative active site [active] 342610006584 heme pocket [chemical binding]; other site 342610006585 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 342610006586 dimer interface [polypeptide binding]; other site 342610006587 phosphorylation site [posttranslational modification] 342610006588 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 342610006589 ATP binding site [chemical binding]; other site 342610006590 Mg2+ binding site [ion binding]; other site 342610006591 G-X-G motif; other site 342610006592 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 342610006593 Response regulator receiver domain; Region: Response_reg; pfam00072 342610006594 active site 342610006595 phosphorylation site [posttranslational modification] 342610006596 intermolecular recognition site; other site 342610006597 dimerization interface [polypeptide binding]; other site 342610006598 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 342610006599 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 342610006600 active site 342610006601 phosphorylation site [posttranslational modification] 342610006602 intermolecular recognition site; other site 342610006603 dimerization interface [polypeptide binding]; other site 342610006604 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 342610006605 DNA binding site [nucleotide binding] 342610006606 two-component sensor protein; Provisional; Region: cpxA; PRK09470 342610006607 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 342610006608 dimer interface [polypeptide binding]; other site 342610006609 phosphorylation site [posttranslational modification] 342610006610 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 342610006611 ATP binding site [chemical binding]; other site 342610006612 Mg2+ binding site [ion binding]; other site 342610006613 G-X-G motif; other site 342610006614 GAF domain; Region: GAF; cl15785 342610006615 GAF domain; Region: GAF_2; pfam13185 342610006616 GAF domain; Region: GAF; cl15785 342610006617 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610006618 metal binding site [ion binding]; metal-binding site 342610006619 active site 342610006620 I-site; other site 342610006621 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 342610006622 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 342610006623 Helix-turn-helix domains; Region: HTH; cl00088 342610006624 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 342610006625 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 342610006626 active site 342610006627 catalytic tetrad [active] 342610006628 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 342610006629 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 342610006630 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610006631 hypothetical protein; Provisional; Region: PRK11281 342610006632 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 342610006633 Mechanosensitive ion channel; Region: MS_channel; pfam00924 342610006634 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610006635 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 342610006636 N-terminal plug; other site 342610006637 ligand-binding site [chemical binding]; other site 342610006638 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 342610006639 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 342610006640 FAD binding pocket [chemical binding]; other site 342610006641 FAD binding motif [chemical binding]; other site 342610006642 phosphate binding motif [ion binding]; other site 342610006643 NAD binding pocket [chemical binding]; other site 342610006644 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 342610006645 non-specific DNA binding site [nucleotide binding]; other site 342610006646 salt bridge; other site 342610006647 sequence-specific DNA binding site [nucleotide binding]; other site 342610006648 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 342610006649 putative cation:proton antiport protein; Provisional; Region: PRK10669 342610006650 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610006651 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 342610006652 GntP family permease; Region: GntP_permease; pfam02447 342610006653 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 342610006654 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 342610006655 homotrimer interaction site [polypeptide binding]; other site 342610006656 putative active site [active] 342610006657 DNA helicase IV; Provisional; Region: helD; PRK11054 342610006658 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610006659 DNA helicase IV; Provisional; Region: helD; PRK11054 342610006660 Family description; Region: UvrD_C_2; cl15862 342610006661 Protein of unknown function (DUF421); Region: DUF421; cl00990 342610006662 UPF0126 domain; Region: UPF0126; pfam03458 342610006663 Predicted membrane protein [Function unknown]; Region: COG2860 342610006664 UPF0126 domain; Region: UPF0126; pfam03458 342610006665 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 342610006666 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 342610006667 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 342610006668 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 342610006669 active site 342610006670 substrate binding site [chemical binding]; other site 342610006671 FMN binding site [chemical binding]; other site 342610006672 putative catalytic residues [active] 342610006673 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 342610006674 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 342610006675 N-terminal plug; other site 342610006676 ligand-binding site [chemical binding]; other site 342610006677 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 342610006678 Gram-negative bacterial tonB protein; Region: TonB; cl10048 342610006679 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 342610006680 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 342610006681 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 342610006682 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 342610006683 FAD binding domain; Region: FAD_binding_4; pfam01565 342610006684 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 342610006685 4Fe-4S binding domain; Region: Fer4; cl02805 342610006686 Cysteine-rich domain; Region: CCG; pfam02754 342610006687 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 342610006688 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 342610006689 active site 342610006690 substrate-binding site [chemical binding]; other site 342610006691 metal-binding site [ion binding] 342610006692 ATP binding site [chemical binding]; other site 342610006693 Protein of unknown function (DUF1428); Region: DUF1428; cl02319 342610006694 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 342610006695 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 342610006696 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610006697 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 342610006698 Ligand Binding Site [chemical binding]; other site 342610006699 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 342610006700 Ligand Binding Site [chemical binding]; other site 342610006701 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 342610006702 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 342610006703 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 342610006704 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 342610006705 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 342610006706 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 342610006707 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 342610006708 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 342610006709 FAD binding pocket [chemical binding]; other site 342610006710 FAD binding motif [chemical binding]; other site 342610006711 phosphate binding motif [ion binding]; other site 342610006712 beta-alpha-beta structure motif; other site 342610006713 NAD binding pocket [chemical binding]; other site 342610006714 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 342610006715 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 342610006716 LysE type translocator; Region: LysE; cl00565 342610006717 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 342610006718 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 342610006719 active site 342610006720 phosphorylation site [posttranslational modification] 342610006721 intermolecular recognition site; other site 342610006722 dimerization interface [polypeptide binding]; other site 342610006723 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 342610006724 DNA binding residues [nucleotide binding] 342610006725 dimerization interface [polypeptide binding]; other site 342610006726 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 342610006727 Cache domain; Region: Cache_2; cl07034 342610006728 Histidine kinase; Region: HisKA_3; pfam07730 342610006729 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 342610006730 ATP binding site [chemical binding]; other site 342610006731 Mg2+ binding site [ion binding]; other site 342610006732 G-X-G motif; other site 342610006733 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 342610006734 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 342610006735 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 342610006736 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 342610006737 DctM-like transporters; Region: DctM; pfam06808 342610006738 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610006739 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 342610006740 E-class dimer interface [polypeptide binding]; other site 342610006741 P-class dimer interface [polypeptide binding]; other site 342610006742 active site 342610006743 Cu2+ binding site [ion binding]; other site 342610006744 Zn2+ binding site [ion binding]; other site 342610006745 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 342610006746 dimer interface [polypeptide binding]; other site 342610006747 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 342610006748 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 342610006749 active site 342610006750 phosphorylation site [posttranslational modification] 342610006751 intermolecular recognition site; other site 342610006752 dimerization interface [polypeptide binding]; other site 342610006753 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 342610006754 DNA binding site [nucleotide binding] 342610006755 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 342610006756 dimer interface [polypeptide binding]; other site 342610006757 phosphorylation site [posttranslational modification] 342610006758 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 342610006759 ATP binding site [chemical binding]; other site 342610006760 Mg2+ binding site [ion binding]; other site 342610006761 G-X-G motif; other site 342610006762 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 342610006763 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 342610006764 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 342610006765 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 342610006766 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 342610006767 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610006768 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 342610006769 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 342610006770 NAD binding site [chemical binding]; other site 342610006771 catalytic Zn binding site [ion binding]; other site 342610006772 substrate binding site [chemical binding]; other site 342610006773 structural Zn binding site [ion binding]; other site 342610006774 Predicted esterase [General function prediction only]; Region: COG0400 342610006775 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 342610006776 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 342610006777 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 342610006778 Catalytic site [active] 342610006779 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 342610006780 Tetratricopeptide repeat; Region: TPR_12; pfam13424 342610006781 Tetratricopeptide repeat; Region: TPR_12; pfam13424 342610006782 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 342610006783 binding surface 342610006784 TPR motif; other site 342610006785 Tetratricopeptide repeat; Region: TPR_12; pfam13424 342610006786 Tetratricopeptide repeat; Region: TPR_12; pfam13424 342610006787 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610006788 metal binding site [ion binding]; metal-binding site 342610006789 active site 342610006790 I-site; other site 342610006791 2-enoyl thioester reductase (ETR) like proteins, child 1; Region: ETR_like_1; cd08291 342610006792 NADP binding site [chemical binding]; other site 342610006793 dimer interface [polypeptide binding]; other site 342610006794 Transcriptional regulator [Transcription]; Region: LysR; COG0583 342610006795 Helix-turn-helix domains; Region: HTH; cl00088 342610006796 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 342610006797 putative effector binding pocket; other site 342610006798 dimerization interface [polypeptide binding]; other site 342610006799 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 342610006800 DNA binding site [nucleotide binding] 342610006801 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 342610006802 putative active site [active] 342610006803 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 342610006804 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610006805 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 342610006806 N-terminal plug; other site 342610006807 ligand-binding site [chemical binding]; other site 342610006808 Putative cyclase; Region: Cyclase; cl00814 342610006809 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK06130 342610006810 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610006811 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 342610006812 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 342610006813 Cupin domain; Region: Cupin_2; cl09118 342610006814 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610006815 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 342610006816 NAD(P) binding site [chemical binding]; other site 342610006817 active site 342610006818 Sodium:solute symporter family; Region: SSF; cl00456 342610006819 Transcriptional regulator [Transcription]; Region: IclR; COG1414 342610006820 Helix-turn-helix domains; Region: HTH; cl00088 342610006821 Bacterial transcriptional regulator; Region: IclR; pfam01614 342610006822 DoxX; Region: DoxX; cl00976 342610006823 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 342610006824 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 342610006825 active site 342610006826 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 342610006827 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 342610006828 putative substrate translocation pore; other site 342610006829 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 342610006830 DEAD-like helicases superfamily; Region: DEXDc; smart00487 342610006831 ATP binding site [chemical binding]; other site 342610006832 Mg++ binding site [ion binding]; other site 342610006833 motif III; other site 342610006834 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 342610006835 nucleotide binding region [chemical binding]; other site 342610006836 ATP-binding site [chemical binding]; other site 342610006837 Transcriptional regulator [Transcription]; Region: LysR; COG0583 342610006838 Helix-turn-helix domains; Region: HTH; cl00088 342610006839 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 342610006840 dimerization interface [polypeptide binding]; other site 342610006841 substrate binding pocket [chemical binding]; other site 342610006842 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 342610006843 intersubunit interface [polypeptide binding]; other site 342610006844 active site 342610006845 Zn2+ binding site [ion binding]; other site 342610006846 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_4; cd06231 342610006847 putative active site [active] 342610006848 Zn binding site [ion binding]; other site 342610006849 Ribbon-helix-helix domain; Region: RHH_4; cl01775 342610006850 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 342610006851 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 342610006852 Excalibur calcium-binding domain; Region: Excalibur; cl05460 342610006853 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 342610006854 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 342610006855 substrate binding pocket [chemical binding]; other site 342610006856 membrane-bound complex binding site; other site 342610006857 hinge residues; other site 342610006858 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 342610006859 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 342610006860 CtsZ (cyclic tetrasaccharide-synthesizing enzyme Z) is a bacterial 6-alpha-glucosyltransferase, first identified in Arthrobacter globiformis, that produces cyclic tetrasaccharides together with a closely related enzyme CtsY. CtsZ and CtsY both have a...; Region: GH31_transferase_CtsZ; cd06598 342610006861 putative active site [active] 342610006862 putative catalytic site [active] 342610006863 Putative esterase; Region: Esterase; pfam00756 342610006864 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 342610006865 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_3; cd11349 342610006866 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 342610006867 active site 342610006868 catalytic site [active] 342610006869 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 342610006870 Domains similar to the eukaryotic reeler domain and bacterial cohesins; Region: Reeler_cohesin_like; cl14606 342610006871 GAF domain; Region: GAF_2; pfam13185 342610006872 GAF domain; Region: GAF; cl15785 342610006873 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 342610006874 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 342610006875 active site 342610006876 DNA binding site [nucleotide binding] 342610006877 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 342610006878 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 342610006879 Catalytic site [active] 342610006880 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 342610006881 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 342610006882 active site 342610006883 catalytic site [active] 342610006884 substrate binding site [chemical binding]; other site 342610006885 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; cl15292 342610006886 Protein of unknown function (DUF2891); Region: DUF2891; pfam11199 342610006887 HPP family; Region: HPP; pfam04982 342610006888 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; cl01201 342610006889 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 342610006890 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 342610006891 active site 342610006892 interdomain interaction site; other site 342610006893 putative metal-binding site [ion binding]; other site 342610006894 nucleotide binding site [chemical binding]; other site 342610006895 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 342610006896 domain I; other site 342610006897 DNA binding groove [nucleotide binding] 342610006898 phosphate binding site [ion binding]; other site 342610006899 domain II; other site 342610006900 domain III; other site 342610006901 nucleotide binding site [chemical binding]; other site 342610006902 catalytic site [active] 342610006903 domain IV; other site 342610006904 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 342610006905 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 342610006906 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 342610006907 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 342610006908 Succinylarginine dihydrolase; Region: AstB; cl01511 342610006909 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 342610006910 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 342610006911 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 342610006912 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 342610006913 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 342610006914 FtsX-like permease family; Region: FtsX; cl15850 342610006915 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 342610006916 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 342610006917 Walker A/P-loop; other site 342610006918 ATP binding site [chemical binding]; other site 342610006919 Q-loop/lid; other site 342610006920 ABC transporter signature motif; other site 342610006921 Walker B; other site 342610006922 D-loop; other site 342610006923 H-loop/switch region; other site 342610006924 Domain of unknown function DUF21; Region: DUF21; pfam01595 342610006925 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 342610006926 TIGR03503 family protein; Region: TIGR03503 342610006927 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 342610006928 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 342610006929 active site 342610006930 catalytic site [active] 342610006931 substrate binding site [chemical binding]; other site 342610006932 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 342610006933 RNA/DNA hybrid binding site [nucleotide binding]; other site 342610006934 active site 342610006935 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 342610006936 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 342610006937 protease 4; Provisional; Region: PRK10949 342610006938 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 342610006939 tandem repeat interface [polypeptide binding]; other site 342610006940 oligomer interface [polypeptide binding]; other site 342610006941 active site residues [active] 342610006942 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 342610006943 tandem repeat interface [polypeptide binding]; other site 342610006944 oligomer interface [polypeptide binding]; other site 342610006945 active site residues [active] 342610006946 hypothetical protein; Provisional; Region: PRK04860 342610006947 SprT homologues; Region: SprT; cl01182 342610006948 Protein of unknown function, DUF412; Region: DUF412; cl01183 342610006949 thioredoxin reductase; Provisional; Region: PRK10262 342610006950 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 342610006951 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 342610006952 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 342610006953 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 342610006954 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 342610006955 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 342610006956 rRNA binding site [nucleotide binding]; other site 342610006957 predicted 30S ribosome binding site; other site 342610006958 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 342610006959 Clp amino terminal domain; Region: Clp_N; pfam02861 342610006960 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 342610006961 Walker A motif; other site 342610006962 ATP binding site [chemical binding]; other site 342610006963 Walker B motif; other site 342610006964 arginine finger; other site 342610006965 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 342610006966 Walker A motif; other site 342610006967 ATP binding site [chemical binding]; other site 342610006968 Walker B motif; other site 342610006969 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 342610006970 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 342610006971 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 342610006972 DNA-binding site [nucleotide binding]; DNA binding site 342610006973 RNA-binding motif; other site 342610006974 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 342610006975 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 342610006976 pseudouridine synthase; Region: TIGR00093 342610006977 active site 342610006978 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 342610006979 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 342610006980 Protein of unknown function (DUF489); Region: DUF489; cl01097 342610006981 adenylosuccinate lyase; Provisional; Region: PRK09285 342610006982 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 342610006983 tetramer interface [polypeptide binding]; other site 342610006984 active site 342610006985 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 342610006986 cyclase homology domain; Region: CHD; cd07302 342610006987 nucleotidyl binding site; other site 342610006988 metal binding site [ion binding]; metal-binding site 342610006989 dimer interface [polypeptide binding]; other site 342610006990 Uncharacterized conserved protein [Function unknown]; Region: COG2850 342610006991 JmjC domain, hydroxylase; Region: JmjC; cl15814 342610006992 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 342610006993 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 342610006994 active site 342610006995 phosphorylation site [posttranslational modification] 342610006996 intermolecular recognition site; other site 342610006997 dimerization interface [polypeptide binding]; other site 342610006998 LytTr DNA-binding domain; Region: LytTR; cl04498 342610006999 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 342610007000 Histidine kinase; Region: His_kinase; pfam06580 342610007001 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 342610007002 ATP binding site [chemical binding]; other site 342610007003 Mg2+ binding site [ion binding]; other site 342610007004 G-X-G motif; other site 342610007005 Protein of unknown function (DUF962); Region: DUF962; cl01879 342610007006 Flagellar protein YcgR; Region: YcgR_2; pfam12945 342610007007 PilZ domain; Region: PilZ; cl01260 342610007008 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 342610007009 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 342610007010 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 342610007011 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 342610007012 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 342610007013 active site 342610007014 purine riboside binding site [chemical binding]; other site 342610007015 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 342610007016 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 342610007017 putative NAD(P) binding site [chemical binding]; other site 342610007018 putative substrate binding site [chemical binding]; other site 342610007019 catalytic Zn binding site [ion binding]; other site 342610007020 structural Zn binding site [ion binding]; other site 342610007021 dimer interface [polypeptide binding]; other site 342610007022 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 342610007023 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 342610007024 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 342610007025 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 342610007026 Outer membrane efflux protein; Region: OEP; pfam02321 342610007027 Outer membrane efflux protein; Region: OEP; pfam02321 342610007028 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 342610007029 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 342610007030 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 342610007031 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 342610007032 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 342610007033 Predicted amidohydrolase [General function prediction only]; Region: COG0388 342610007034 putative active site [active] 342610007035 catalytic triad [active] 342610007036 putative dimer interface [polypeptide binding]; other site 342610007037 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 342610007038 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 342610007039 active site 342610007040 FMN binding site [chemical binding]; other site 342610007041 2,4-decadienoyl-CoA binding site; other site 342610007042 catalytic residue [active] 342610007043 4Fe-4S cluster binding site [ion binding]; other site 342610007044 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610007045 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 342610007046 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 342610007047 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 342610007048 N-terminal plug; other site 342610007049 ligand-binding site [chemical binding]; other site 342610007050 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 342610007051 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 342610007052 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 342610007053 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 342610007054 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 342610007055 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 342610007056 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 342610007057 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 342610007058 Walker A/P-loop; other site 342610007059 ATP binding site [chemical binding]; other site 342610007060 Q-loop/lid; other site 342610007061 ABC transporter signature motif; other site 342610007062 Walker B; other site 342610007063 D-loop; other site 342610007064 H-loop/switch region; other site 342610007065 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 342610007066 FtsX-like permease family; Region: FtsX; cl15850 342610007067 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 342610007068 FtsX-like permease family; Region: FtsX; cl15850 342610007069 Predicted membrane protein [Function unknown]; Region: COG2119 342610007070 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 342610007071 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 342610007072 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 342610007073 Protein of unknown function (DUF541); Region: SIMPL; cl01077 342610007074 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 342610007075 nitrate transport ATP-binding subunits C and D; Region: ntrCD; TIGR01184 342610007076 Walker A/P-loop; other site 342610007077 ATP binding site [chemical binding]; other site 342610007078 Q-loop/lid; other site 342610007079 ABC transporter signature motif; other site 342610007080 Walker B; other site 342610007081 D-loop; other site 342610007082 H-loop/switch region; other site 342610007083 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 342610007084 dimer interface [polypeptide binding]; other site 342610007085 conserved gate region; other site 342610007086 putative PBP binding loops; other site 342610007087 ABC-ATPase subunit interface; other site 342610007088 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 342610007089 NMT1-like family; Region: NMT1_2; cl15260 342610007090 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 342610007091 active site 342610007092 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 342610007093 Catalytic domain of Protein Kinases; Region: PKc; cd00180 342610007094 active site 342610007095 ATP binding site [chemical binding]; other site 342610007096 substrate binding site [chemical binding]; other site 342610007097 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 342610007098 substrate binding site [chemical binding]; other site 342610007099 activation loop (A-loop); other site 342610007100 activation loop (A-loop); other site 342610007101 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 342610007102 putative substrate translocation pore; other site 342610007103 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 342610007104 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 342610007105 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 342610007106 active site 342610007107 purine riboside binding site [chemical binding]; other site 342610007108 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 342610007109 Sulfate transporter family; Region: Sulfate_transp; cl15842 342610007110 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 342610007111 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 342610007112 active site 342610007113 catalytic site [active] 342610007114 tetramer interface [polypeptide binding]; other site 342610007115 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 342610007116 Helix-turn-helix domains; Region: HTH; cl00088 342610007117 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 342610007118 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 342610007119 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 342610007120 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 342610007121 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 342610007122 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 342610007123 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 342610007124 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 342610007125 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 342610007126 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 342610007127 XdhC Rossmann domain; Region: XdhC_C; pfam13478 342610007128 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 342610007129 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 342610007130 active site 342610007131 homotetramer interface [polypeptide binding]; other site 342610007132 guanine deaminase; Provisional; Region: PRK09228 342610007133 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 342610007134 active site 342610007135 Protein of unknown function (DUF989); Region: DUF989; pfam06181 342610007136 Predicted membrane protein [Function unknown]; Region: COG3748 342610007137 Cytochrome c; Region: Cytochrom_C; cl11414 342610007138 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 342610007139 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 342610007140 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 342610007141 probable methyltransferase; Region: TIGR03438 342610007142 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 342610007143 TIGR03440 family protein; Region: unchr_TIGR03440 342610007144 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 342610007145 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 342610007146 NADP binding site [chemical binding]; other site 342610007147 Protein of unknown function (DUF3297); Region: DUF3297; pfam11730 342610007148 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 342610007149 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 342610007150 ATP binding site [chemical binding]; other site 342610007151 Mg++ binding site [ion binding]; other site 342610007152 motif III; other site 342610007153 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 342610007154 nucleotide binding region [chemical binding]; other site 342610007155 ATP-binding site [chemical binding]; other site 342610007156 Gram-negative bacterial tonB protein; Region: TonB; cl10048 342610007157 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 342610007158 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 342610007159 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 342610007160 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 342610007161 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 342610007162 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 342610007163 GIY-YIG motif/motif A; other site 342610007164 active site 342610007165 catalytic site [active] 342610007166 putative DNA binding site [nucleotide binding]; other site 342610007167 metal binding site [ion binding]; metal-binding site 342610007168 UvrB/uvrC motif; Region: UVR; pfam02151 342610007169 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 342610007170 response regulator; Provisional; Region: PRK09483 342610007171 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 342610007172 active site 342610007173 phosphorylation site [posttranslational modification] 342610007174 intermolecular recognition site; other site 342610007175 dimerization interface [polypeptide binding]; other site 342610007176 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 342610007177 DNA binding residues [nucleotide binding] 342610007178 dimerization interface [polypeptide binding]; other site 342610007179 YccA-like proteins; Region: YccA_like; cd10433 342610007180 DsrE/DsrF-like family; Region: DrsE; cl00672 342610007181 DsrE/DsrF-like family; Region: DrsE; cl00672 342610007182 DsrE/DsrF-like family; Region: DrsE; cl00672 342610007183 DsrC like protein; Region: DsrC; cl01101 342610007184 seryl-tRNA synthetase; Provisional; Region: PRK05431 342610007185 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 342610007186 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 342610007187 dimer interface [polypeptide binding]; other site 342610007188 active site 342610007189 motif 1; other site 342610007190 motif 2; other site 342610007191 motif 3; other site 342610007192 CrcB-like protein; Region: CRCB; cl09114 342610007193 recombination factor protein RarA; Reviewed; Region: PRK13342 342610007194 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 342610007195 Walker A motif; other site 342610007196 ATP binding site [chemical binding]; other site 342610007197 Walker B motif; other site 342610007198 arginine finger; other site 342610007199 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 342610007200 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 342610007201 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 342610007202 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 342610007203 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 342610007204 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610007205 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 342610007206 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 342610007207 Helix-turn-helix domains; Region: HTH; cl00088 342610007208 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 342610007209 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 342610007210 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610007211 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 342610007212 active site 342610007213 dimer interface [polypeptide binding]; other site 342610007214 tetratricopeptide repeat protein; Provisional; Region: PRK11788 342610007215 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 342610007216 binding surface 342610007217 TPR motif; other site 342610007218 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 342610007219 binding surface 342610007220 TPR motif; other site 342610007221 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 342610007222 IHF dimer interface [polypeptide binding]; other site 342610007223 IHF - DNA interface [nucleotide binding]; other site 342610007224 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 342610007225 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 342610007226 RNA binding site [nucleotide binding]; other site 342610007227 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 342610007228 RNA binding site [nucleotide binding]; other site 342610007229 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 342610007230 RNA binding site [nucleotide binding]; other site 342610007231 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 342610007232 RNA binding site [nucleotide binding]; other site 342610007233 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 342610007234 RNA binding site [nucleotide binding]; other site 342610007235 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 342610007236 RNA binding site [nucleotide binding]; other site 342610007237 cytidylate kinase; Provisional; Region: cmk; PRK00023 342610007238 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 342610007239 CMP-binding site; other site 342610007240 The sites determining sugar specificity; other site 342610007241 3-phosphoshikimate 1-carboxyvinyltransferase; Region: PLN02338 342610007242 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 342610007243 hinge; other site 342610007244 active site 342610007245 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 342610007246 homodimer interface [polypeptide binding]; other site 342610007247 substrate-cofactor binding pocket; other site 342610007248 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 342610007249 pyridoxal 5'-phosphate binding site [chemical binding]; other site 342610007250 catalytic residue [active] 342610007251 DNA gyrase subunit A; Validated; Region: PRK05560 342610007252 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 342610007253 CAP-like domain; other site 342610007254 active site 342610007255 primary dimer interface [polypeptide binding]; other site 342610007256 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 342610007257 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 342610007258 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 342610007259 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 342610007260 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 342610007261 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 342610007262 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 342610007263 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 342610007264 S-adenosylmethionine binding site [chemical binding]; other site 342610007265 phosphoglycolate phosphatase; Provisional; Region: PRK13226 342610007266 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 342610007267 motif II; other site 342610007268 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 342610007269 ATP cone domain; Region: ATP-cone; pfam03477 342610007270 Class I ribonucleotide reductase; Region: RNR_I; cd01679 342610007271 active site 342610007272 dimer interface [polypeptide binding]; other site 342610007273 catalytic residues [active] 342610007274 effector binding site; other site 342610007275 R2 peptide binding site; other site 342610007276 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 342610007277 dimer interface [polypeptide binding]; other site 342610007278 putative radical transfer pathway; other site 342610007279 diiron center [ion binding]; other site 342610007280 tyrosyl radical; other site 342610007281 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 342610007282 catalytic loop [active] 342610007283 iron binding site [ion binding]; other site 342610007284 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 342610007285 ATP binding site [chemical binding]; other site 342610007286 active site 342610007287 substrate binding site [chemical binding]; other site 342610007288 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 342610007289 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 342610007290 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 342610007291 dihydrodipicolinate synthase; Region: dapA; TIGR00674 342610007292 dimer interface [polypeptide binding]; other site 342610007293 active site 342610007294 catalytic residue [active] 342610007295 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 342610007296 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 342610007297 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 342610007298 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 342610007299 catalytic triad [active] 342610007300 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 342610007301 Domain of unknown function DUF20; Region: UPF0118; pfam01594 342610007302 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 342610007303 Peptidase family M48; Region: Peptidase_M48; cl12018 342610007304 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 342610007305 binding surface 342610007306 TPR motif; other site 342610007307 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 342610007308 catalytic residues [active] 342610007309 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 342610007310 ArsC family; Region: ArsC; pfam03960 342610007311 catalytic residues [active] 342610007312 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 342610007313 Predicted membrane protein (DUF2069); Region: DUF2069; cl01299 342610007314 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610007315 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 342610007316 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 342610007317 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 342610007318 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 342610007319 dimerization interface [polypeptide binding]; other site 342610007320 putative ATP binding site [chemical binding]; other site 342610007321 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 342610007322 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 342610007323 active site 342610007324 substrate binding site [chemical binding]; other site 342610007325 cosubstrate binding site; other site 342610007326 catalytic site [active] 342610007327 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 342610007328 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 342610007329 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 342610007330 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 342610007331 active site 342610007332 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 342610007333 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 342610007334 IHF dimer interface [polypeptide binding]; other site 342610007335 IHF - DNA interface [nucleotide binding]; other site 342610007336 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 342610007337 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 342610007338 putative tRNA-binding site [nucleotide binding]; other site 342610007339 B3/4 domain; Region: B3_4; cl11458 342610007340 tRNA synthetase B5 domain; Region: B5; cl08394 342610007341 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 342610007342 dimer interface [polypeptide binding]; other site 342610007343 motif 1; other site 342610007344 motif 3; other site 342610007345 motif 2; other site 342610007346 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 342610007347 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 342610007348 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 342610007349 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 342610007350 dimer interface [polypeptide binding]; other site 342610007351 motif 1; other site 342610007352 active site 342610007353 motif 2; other site 342610007354 motif 3; other site 342610007355 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 342610007356 23S rRNA binding site [nucleotide binding]; other site 342610007357 L21 binding site [polypeptide binding]; other site 342610007358 L13 binding site [polypeptide binding]; other site 342610007359 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 342610007360 translation initiation factor IF-3; Region: infC; TIGR00168 342610007361 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 342610007362 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 342610007363 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 342610007364 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 342610007365 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 342610007366 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 342610007367 active site 342610007368 dimer interface [polypeptide binding]; other site 342610007369 motif 1; other site 342610007370 motif 2; other site 342610007371 motif 3; other site 342610007372 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 342610007373 anticodon binding site; other site 342610007374 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family; Region: START_1; cd08876 342610007375 putative lipid binding site [chemical binding]; other site 342610007376 pteridine reductase; Provisional; Region: PRK09135 342610007377 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610007378 NAD(P) binding site [chemical binding]; other site 342610007379 active site 342610007380 Protein of unknown function (DUF3080); Region: DUF3080; pfam11279 342610007381 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 342610007382 active site 342610007383 catalytic site [active] 342610007384 substrate binding site [chemical binding]; other site 342610007385 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 342610007386 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 342610007387 ligand binding site [chemical binding]; other site 342610007388 flexible hinge region; other site 342610007389 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 342610007390 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 342610007391 metal binding triad; other site 342610007392 BCCT family transporter; Region: BCCT; cl00569 342610007393 Phosphate-selective porin O and P; Region: Porin_O_P; cl01524 342610007394 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 342610007395 Uncharacterized conserved protein [Function unknown]; Region: COG3603 342610007396 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 342610007397 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 342610007398 HPr interaction site; other site 342610007399 glycerol kinase (GK) interaction site [polypeptide binding]; other site 342610007400 active site 342610007401 phosphorylation site [posttranslational modification] 342610007402 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 342610007403 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 342610007404 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 342610007405 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 342610007406 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 342610007407 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 342610007408 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 342610007409 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 342610007410 Ligand binding site; other site 342610007411 metal-binding site 342610007412 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 342610007413 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 342610007414 XdhC Rossmann domain; Region: XdhC_C; pfam13478 342610007415 RDD family; Region: RDD; cl00746 342610007416 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 342610007417 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 342610007418 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 342610007419 Walker A motif; other site 342610007420 ATP binding site [chemical binding]; other site 342610007421 Walker B motif; other site 342610007422 arginine finger; other site 342610007423 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 342610007424 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 342610007425 dimer interface [polypeptide binding]; other site 342610007426 pyridoxal 5'-phosphate binding site [chemical binding]; other site 342610007427 catalytic residue [active] 342610007428 Protein of unknown function (DUF1006); Region: DUF1006; cl15826 342610007429 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 342610007430 Protein of unknown function (DUF3703); Region: DUF3703; pfam12487 342610007431 FOG: CBS domain [General function prediction only]; Region: COG0517 342610007432 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_24; cd04637 342610007433 Rhomboid family; Region: Rhomboid; cl11446 342610007434 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 342610007435 elongation factor P; Provisional; Region: PRK04542 342610007436 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 342610007437 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 342610007438 RNA binding site [nucleotide binding]; other site 342610007439 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 342610007440 RNA binding site [nucleotide binding]; other site 342610007441 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 342610007442 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 342610007443 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 342610007444 catalytic residues [active] 342610007445 dimer interface [polypeptide binding]; other site 342610007446 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 342610007447 NMT1-like family; Region: NMT1_2; cl15260 342610007448 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 342610007449 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 342610007450 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 342610007451 active site 342610007452 phosphorylation site [posttranslational modification] 342610007453 intermolecular recognition site; other site 342610007454 dimerization interface [polypeptide binding]; other site 342610007455 ANTAR domain; Region: ANTAR; cl04297 342610007456 hypothetical protein; Validated; Region: PRK09071 342610007457 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 342610007458 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 342610007459 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 342610007460 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 342610007461 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 342610007462 [4Fe-4S] binding site [ion binding]; other site 342610007463 molybdopterin cofactor binding site; other site 342610007464 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 342610007465 molybdopterin cofactor binding site; other site 342610007466 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 342610007467 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 342610007468 nitrite reductase subunit NirD; Provisional; Region: PRK14989 342610007469 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 342610007470 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 342610007471 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3735 342610007472 TraB family; Region: TraB; cl12050 342610007473 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 342610007474 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 342610007475 ATP binding site [chemical binding]; other site 342610007476 substrate interface [chemical binding]; other site 342610007477 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 342610007478 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 342610007479 dimer interface [polypeptide binding]; other site 342610007480 putative functional site; other site 342610007481 putative MPT binding site; other site 342610007482 multidrug efflux protein; Reviewed; Region: PRK01766 342610007483 MatE; Region: MatE; cl10513 342610007484 MatE; Region: MatE; cl10513 342610007485 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 342610007486 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 342610007487 substrate binding pocket [chemical binding]; other site 342610007488 membrane-bound complex binding site; other site 342610007489 hinge residues; other site 342610007490 Protein of unknown function (DUF3360); Region: DUF3360; pfam11840 342610007491 LysE type translocator; Region: LysE; cl00565 342610007492 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 342610007493 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 342610007494 dimer interface [polypeptide binding]; other site 342610007495 phosphorylation site [posttranslational modification] 342610007496 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 342610007497 ATP binding site [chemical binding]; other site 342610007498 Mg2+ binding site [ion binding]; other site 342610007499 G-X-G motif; other site 342610007500 Response regulator receiver domain; Region: Response_reg; pfam00072 342610007501 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 342610007502 active site 342610007503 phosphorylation site [posttranslational modification] 342610007504 intermolecular recognition site; other site 342610007505 dimerization interface [polypeptide binding]; other site 342610007506 SapC; Region: SapC; pfam07277 342610007507 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610007508 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 342610007509 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610007510 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610007511 Transcriptional regulators [Transcription]; Region: FadR; COG2186 342610007512 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 342610007513 DNA-binding site [nucleotide binding]; DNA binding site 342610007514 FCD domain; Region: FCD; cl11656 342610007515 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 342610007516 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 342610007517 active site pocket [active] 342610007518 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 342610007519 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 342610007520 NAD(P) binding site [chemical binding]; other site 342610007521 2-deoxy-D-gluconate 3-dehydrogenase; Region: kduD; TIGR01832 342610007522 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 342610007523 NADP binding site [chemical binding]; other site 342610007524 homodimer interface [polypeptide binding]; other site 342610007525 active site 342610007526 Escherichia coli lactaldehyde dehydrogenase AldA-like; Region: ALDH_LactADH-AldA; cd07088 342610007527 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 342610007528 NAD binding site [chemical binding]; other site 342610007529 catalytic residues [active] 342610007530 substrate binding site [chemical binding]; other site 342610007531 AAA domain; Region: AAA_26; pfam13500 342610007532 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610007533 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610007534 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 342610007535 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 342610007536 S-adenosylmethionine binding site [chemical binding]; other site 342610007537 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 342610007538 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 342610007539 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 342610007540 catalytic residue [active] 342610007541 biotin synthase; Provisional; Region: PRK15108 342610007542 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 342610007543 FeS/SAM binding site; other site 342610007544 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 342610007545 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 342610007546 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 342610007547 inhibitor-cofactor binding pocket; inhibition site 342610007548 pyridoxal 5'-phosphate binding site [chemical binding]; other site 342610007549 catalytic residue [active] 342610007550 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 342610007551 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 342610007552 TPR motif; other site 342610007553 binding surface 342610007554 Tetratricopeptide repeat; Region: TPR_9; pfam13371 342610007555 Invasion gene expression up-regulator, SirB; Region: SirB; cl01184 342610007556 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 342610007557 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 342610007558 active site 342610007559 phosphorylation site [posttranslational modification] 342610007560 intermolecular recognition site; other site 342610007561 dimerization interface [polypeptide binding]; other site 342610007562 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 342610007563 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 342610007564 Zn2+ binding site [ion binding]; other site 342610007565 Mg2+ binding site [ion binding]; other site 342610007566 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 342610007567 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 342610007568 peptide chain release factor 1; Validated; Region: prfA; PRK00591 342610007569 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 342610007570 RF-1 domain; Region: RF-1; cl02875 342610007571 RF-1 domain; Region: RF-1; cl02875 342610007572 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 342610007573 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 342610007574 tRNA; other site 342610007575 putative tRNA binding site [nucleotide binding]; other site 342610007576 putative NADP binding site [chemical binding]; other site 342610007577 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 342610007578 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 342610007579 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 342610007580 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 342610007581 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 342610007582 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 342610007583 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 342610007584 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 342610007585 active site 342610007586 Mechanosensitive ion channel; Region: MS_channel; pfam00924 342610007587 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 342610007588 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 342610007589 5S rRNA interface [nucleotide binding]; other site 342610007590 CTC domain interface [polypeptide binding]; other site 342610007591 L16 interface [polypeptide binding]; other site 342610007592 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 342610007593 putative active site [active] 342610007594 catalytic residue [active] 342610007595 GTP-binding protein YchF; Reviewed; Region: PRK09601 342610007596 YchF GTPase; Region: YchF; cd01900 342610007597 G1 box; other site 342610007598 GTP/Mg2+ binding site [chemical binding]; other site 342610007599 Switch I region; other site 342610007600 G2 box; other site 342610007601 Switch II region; other site 342610007602 G3 box; other site 342610007603 G4 box; other site 342610007604 G5 box; other site 342610007605 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 342610007606 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 342610007607 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 342610007608 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 342610007609 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 342610007610 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 342610007611 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 342610007612 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Provisional; Region: PRK08849 342610007613 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610007614 Response regulator receiver domain; Region: Response_reg; pfam00072 342610007615 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 342610007616 active site 342610007617 phosphorylation site [posttranslational modification] 342610007618 intermolecular recognition site; other site 342610007619 dimerization interface [polypeptide binding]; other site 342610007620 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 342610007621 putative diguanylate cyclase; Provisional; Region: PRK13561 342610007622 PAS domain S-box; Region: sensory_box; TIGR00229 342610007623 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 342610007624 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610007625 metal binding site [ion binding]; metal-binding site 342610007626 active site 342610007627 I-site; other site 342610007628 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 342610007629 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 342610007630 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610007631 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 342610007632 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610007633 BCCT family transporter; Region: BCCT; cl00569 342610007634 choline dehydrogenase; Validated; Region: PRK02106 342610007635 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 342610007636 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 342610007637 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 342610007638 NAD(P) binding site [chemical binding]; other site 342610007639 catalytic residues [active] 342610007640 transcriptional regulator BetI; Validated; Region: PRK00767 342610007641 Helix-turn-helix domains; Region: HTH; cl00088 342610007642 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 342610007643 acetate kinase; Region: ackA; TIGR00016 342610007644 Acetokinase family; Region: Acetate_kinase; cl01029 342610007645 phosphate acetyltransferase; Reviewed; Region: PRK05632 342610007646 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610007647 DRTGG domain; Region: DRTGG; cl12147 342610007648 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 342610007649 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 342610007650 active site 342610007651 ADP/pyrophosphate binding site [chemical binding]; other site 342610007652 dimerization interface [polypeptide binding]; other site 342610007653 allosteric effector site; other site 342610007654 fructose-1,6-bisphosphate binding site; other site 342610007655 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 342610007656 catalytic core [active] 342610007657 phosphoenolpyruvate synthase; Validated; Region: PRK06464 342610007658 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 342610007659 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 342610007660 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 342610007661 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 342610007662 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 342610007663 Cl- selectivity filter; other site 342610007664 Cl- binding residues [ion binding]; other site 342610007665 pore gating glutamate residue; other site 342610007666 dimer interface [polypeptide binding]; other site 342610007667 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610007668 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 342610007669 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 342610007670 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 342610007671 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 342610007672 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 342610007673 ATP binding site [chemical binding]; other site 342610007674 putative Mg++ binding site [ion binding]; other site 342610007675 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 342610007676 nucleotide binding region [chemical binding]; other site 342610007677 ATP-binding site [chemical binding]; other site 342610007678 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 342610007679 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 342610007680 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 342610007681 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 342610007682 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 342610007683 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 342610007684 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 342610007685 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 342610007686 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 342610007687 N-terminal plug; other site 342610007688 ligand-binding site [chemical binding]; other site 342610007689 TAT (twin-arginine translocation) pathway signal sequence; Region: TAT_signal; pfam10518 342610007690 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 342610007691 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 342610007692 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 342610007693 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 342610007694 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 342610007695 putative substrate binding pocket [chemical binding]; other site 342610007696 trimer interface [polypeptide binding]; other site 342610007697 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 342610007698 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 342610007699 active site 342610007700 nucleophile elbow; other site 342610007701 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 342610007702 threonine and homoserine efflux system; Provisional; Region: PRK10532 342610007703 Transcriptional regulator [Transcription]; Region: LysR; COG0583 342610007704 Helix-turn-helix domains; Region: HTH; cl00088 342610007705 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 342610007706 dimerization interface [polypeptide binding]; other site 342610007707 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610007708 short chain dehydrogenase; Provisional; Region: PRK07041 342610007709 NAD(P) binding site [chemical binding]; other site 342610007710 active site 342610007711 Putative addiction module component; Region: Unstab_antitox; cl09921 342610007712 Uncharacterized protein family (UPF0160); Region: UPF0160; cl01749 342610007713 Helix-turn-helix domain; Region: HTH_18; pfam12833 342610007714 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 342610007715 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610007716 Uncharacterized conserved protein [Function unknown]; Region: COG2128 342610007717 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 342610007718 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 342610007719 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 342610007720 [2Fe-2S] cluster binding site [ion binding]; other site 342610007721 C-terminal catalytic domain of the oxygenase alpha subunit of an uncharacterized subgroup of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C_3; cd08887 342610007722 putative alpha subunit interface [polypeptide binding]; other site 342610007723 putative active site [active] 342610007724 putative substrate binding site [chemical binding]; other site 342610007725 Fe binding site [ion binding]; other site 342610007726 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 342610007727 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 342610007728 DNA-binding site [nucleotide binding]; DNA binding site 342610007729 RNA-binding motif; other site 342610007730 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 342610007731 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 342610007732 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 342610007733 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 342610007734 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 342610007735 dimer interface [polypeptide binding]; other site 342610007736 active site 342610007737 metal binding site [ion binding]; metal-binding site 342610007738 glutathione binding site [chemical binding]; other site 342610007739 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 342610007740 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 342610007741 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 342610007742 putative NAD(P) binding site [chemical binding]; other site 342610007743 dimer interface [polypeptide binding]; other site 342610007744 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 342610007745 Helix-turn-helix domains; Region: HTH; cl00088 342610007746 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 342610007747 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 342610007748 NADP binding site [chemical binding]; other site 342610007749 dimer interface [polypeptide binding]; other site 342610007750 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 342610007751 Beta-galactosidase; Region: Glyco_hydro_42; cl03154 342610007752 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 342610007753 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 342610007754 active site 342610007755 intersubunit interface [polypeptide binding]; other site 342610007756 catalytic residue [active] 342610007757 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 342610007758 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 342610007759 substrate binding site [chemical binding]; other site 342610007760 ATP binding site [chemical binding]; other site 342610007761 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 342610007762 D-galactonate transporter; Region: 2A0114; TIGR00893 342610007763 putative substrate translocation pore; other site 342610007764 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 342610007765 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 342610007766 active site pocket [active] 342610007767 Transcriptional regulators [Transcription]; Region: FadR; COG2186 342610007768 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 342610007769 DNA-binding site [nucleotide binding]; DNA binding site 342610007770 FCD domain; Region: FCD; cl11656 342610007771 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 342610007772 putative catalytic site [active] 342610007773 putative phosphate binding site [ion binding]; other site 342610007774 active site 342610007775 metal binding site A [ion binding]; metal-binding site 342610007776 DNA binding site [nucleotide binding] 342610007777 putative AP binding site [nucleotide binding]; other site 342610007778 putative metal binding site B [ion binding]; other site 342610007779 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 342610007780 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 342610007781 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 342610007782 potential catalytic triad [active] 342610007783 conserved cys residue [active] 342610007784 Transcriptional regulator [Transcription]; Region: LysR; COG0583 342610007785 Helix-turn-helix domains; Region: HTH; cl00088 342610007786 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 342610007787 putative effector binding pocket; other site 342610007788 dimerization interface [polypeptide binding]; other site 342610007789 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 342610007790 Transposase; Region: DEDD_Tnp_IS110; pfam01548 342610007791 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 342610007792 Domain of unknown function (DUF4393); Region: DUF4393; pfam14337 342610007793 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 342610007794 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 342610007795 active site 342610007796 metal binding site [ion binding]; metal-binding site 342610007797 Transcriptional regulator [Transcription]; Region: LysR; COG0583 342610007798 Helix-turn-helix domains; Region: HTH; cl00088 342610007799 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 342610007800 dimerization interface [polypeptide binding]; other site 342610007801 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 342610007802 Bacterial Ig-like domain (group 3); Region: Big_3_3; pfam13750 342610007803 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 342610007804 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 342610007805 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 342610007806 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 342610007807 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 342610007808 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 342610007809 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 342610007810 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 342610007811 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_C39_likeD; cd02421 342610007812 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 342610007813 Walker A/P-loop; other site 342610007814 ATP binding site [chemical binding]; other site 342610007815 Q-loop/lid; other site 342610007816 ABC transporter signature motif; other site 342610007817 Walker B; other site 342610007818 D-loop; other site 342610007819 H-loop/switch region; other site 342610007820 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 342610007821 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 342610007822 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 342610007823 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 342610007824 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610007825 metal binding site [ion binding]; metal-binding site 342610007826 active site 342610007827 I-site; other site 342610007828 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 342610007829 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 342610007830 GAF domain; Region: GAF; cl15785 342610007831 PAS domain; Region: PAS_9; pfam13426 342610007832 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 342610007833 dimer interface [polypeptide binding]; other site 342610007834 phosphorylation site [posttranslational modification] 342610007835 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 342610007836 ATP binding site [chemical binding]; other site 342610007837 Mg2+ binding site [ion binding]; other site 342610007838 G-X-G motif; other site 342610007839 Response regulator receiver domain; Region: Response_reg; pfam00072 342610007840 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 342610007841 active site 342610007842 phosphorylation site [posttranslational modification] 342610007843 intermolecular recognition site; other site 342610007844 dimerization interface [polypeptide binding]; other site 342610007845 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610007846 metal binding site [ion binding]; metal-binding site 342610007847 active site 342610007848 I-site; other site 342610007849 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 342610007850 D-cysteine desulfhydrase; Validated; Region: PRK03910 342610007851 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 342610007852 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 342610007853 catalytic residue [active] 342610007854 magnesium Mg(2+) and cobalt Co(2+) transport protein (corA); Region: corA; TIGR00383 342610007855 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 342610007856 alternate F1F0 ATPase, F1 subunit beta; Region: alt_F1F0_F1_bet; TIGR03305 342610007857 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 342610007858 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 342610007859 alpha subunit interaction interface [polypeptide binding]; other site 342610007860 Walker A motif; other site 342610007861 ATP binding site [chemical binding]; other site 342610007862 Walker B motif; other site 342610007863 inhibitor binding site; inhibition site 342610007864 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 342610007865 F0F1 ATP synthase subunit epsilon; Validated; Region: PRK06228 342610007866 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 342610007867 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 342610007868 ATP synthase A chain; Region: ATP-synt_A; cl00413 342610007869 ATP synthase subunit C; Region: ATP-synt_C; cl00466 342610007870 alternate F1F0 ATPase, F0 subunit B; Region: alt_F1F0_F0_B; TIGR03321 342610007871 Plant ATP synthase F0; Region: YMF19; cl07975 342610007872 alternate F1F0 ATPase, F1 subunit alpha; Region: alt_F1F0_F1_al; TIGR03324 342610007873 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 342610007874 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610007875 Walker A motif; other site 342610007876 ATP binding site [chemical binding]; other site 342610007877 Walker B motif; other site 342610007878 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 342610007879 ATP synthase; Region: ATP-synt; cl00365 342610007880 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 342610007881 GAF domain; Region: GAF_2; pfam13185 342610007882 GAF domain; Region: GAF; cl15785 342610007883 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610007884 metal binding site [ion binding]; metal-binding site 342610007885 active site 342610007886 I-site; other site 342610007887 DNA-binding transcriptional regulator GalR; Provisional; Region: PRK10727 342610007888 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 342610007889 DNA binding site [nucleotide binding] 342610007890 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 342610007891 dimerization interface (closed form) [polypeptide binding]; other site 342610007892 ligand binding site [chemical binding]; other site 342610007893 MFS/sugar transport protein; Region: MFS_2; pfam13347 342610007894 DNA-binding transcriptional regulator GalR; Provisional; Region: PRK10727 342610007895 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 342610007896 DNA binding site [nucleotide binding] 342610007897 domain linker motif; other site 342610007898 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 342610007899 dimerization interface (closed form) [polypeptide binding]; other site 342610007900 ligand binding site [chemical binding]; other site 342610007901 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 342610007902 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 342610007903 active site 342610007904 catalytic residues [active] 342610007905 putative transporter; Provisional; Region: PRK10484 342610007906 Sodium:solute symporter family; Region: SSF; cl00456 342610007907 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 342610007908 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 342610007909 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 342610007910 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610007911 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 342610007912 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 342610007913 nucleoside transporter; Region: 2A0110; TIGR00889 342610007914 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 342610007915 putative substrate translocation pore; other site 342610007916 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 342610007917 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 342610007918 AP (apurinic/apyrimidinic) site pocket; other site 342610007919 DNA interaction; other site 342610007920 Metal-binding active site; metal-binding site 342610007921 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 342610007922 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 342610007923 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610007924 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 342610007925 Transcriptional regulators [Transcription]; Region: PurR; COG1609 342610007926 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 342610007927 DNA binding site [nucleotide binding] 342610007928 domain linker motif; other site 342610007929 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 342610007930 dimerization interface [polypeptide binding]; other site 342610007931 ligand binding site [chemical binding]; other site 342610007932 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 342610007933 Transcriptional regulators [Transcription]; Region: FadR; COG2186 342610007934 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 342610007935 DNA-binding site [nucleotide binding]; DNA binding site 342610007936 FCD domain; Region: FCD; cl11656 342610007937 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 342610007938 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610007939 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610007940 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 342610007941 Sulfatase; Region: Sulfatase; cl10460 342610007942 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 342610007943 Coenzyme A binding pocket [chemical binding]; other site 342610007944 Histone acetyltransferase [Transcription / Chromatin structure and dynamics]; Region: ELP3; COG1243 342610007945 aspartate aminotransferase; Provisional; Region: PRK05957 342610007946 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 342610007947 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 342610007948 active site 342610007949 metal binding site [ion binding]; metal-binding site 342610007950 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 342610007951 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 342610007952 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 342610007953 active site 342610007954 metal binding site [ion binding]; metal-binding site 342610007955 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 342610007956 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 342610007957 ligand binding site [chemical binding]; other site 342610007958 flexible hinge region; other site 342610007959 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 342610007960 putative switch regulator; other site 342610007961 non-specific DNA interactions [nucleotide binding]; other site 342610007962 DNA binding site [nucleotide binding] 342610007963 sequence specific DNA binding site [nucleotide binding]; other site 342610007964 putative cAMP binding site [chemical binding]; other site 342610007965 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 342610007966 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 342610007967 active site 342610007968 metal binding site [ion binding]; metal-binding site 342610007969 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 342610007970 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 342610007971 N-terminal plug; other site 342610007972 ligand-binding site [chemical binding]; other site 342610007973 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 342610007974 putative active site [active] 342610007975 putative metal binding site [ion binding]; other site 342610007976 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610007977 metal binding site [ion binding]; metal-binding site 342610007978 active site 342610007979 I-site; other site 342610007980 Predicted ATPase [General function prediction only]; Region: COG1485 342610007981 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 342610007982 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 342610007983 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 342610007984 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 342610007985 CoenzymeA binding site [chemical binding]; other site 342610007986 subunit interaction site [polypeptide binding]; other site 342610007987 PHB binding site; other site 342610007988 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 342610007989 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 342610007990 FMN binding site [chemical binding]; other site 342610007991 substrate binding site [chemical binding]; other site 342610007992 putative catalytic residue [active] 342610007993 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 342610007994 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 342610007995 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610007996 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 342610007997 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 342610007998 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 342610007999 N-terminal plug; other site 342610008000 ligand-binding site [chemical binding]; other site 342610008001 CpeT/CpcT family (DUF1001); Region: CpeT; pfam06206 342610008002 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 342610008003 CoA-transferase family III; Region: CoA_transf_3; pfam02515 342610008004 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 342610008005 CoA-transferase family III; Region: CoA_transf_3; pfam02515 342610008006 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 342610008007 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 342610008008 active site 342610008009 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 342610008010 putative active site [active] 342610008011 putative catalytic site [active] 342610008012 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 342610008013 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 342610008014 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 342610008015 active site 342610008016 catalytic site [active] 342610008017 tetramer interface [polypeptide binding]; other site 342610008018 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 342610008019 classical (c) SDRs; Region: SDR_c; cd05233 342610008020 NAD(P) binding site [chemical binding]; other site 342610008021 active site 342610008022 REDY-like protein HapK; Region: HapK; pfam11639 342610008023 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 342610008024 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 342610008025 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 342610008026 putative acyl-acceptor binding pocket; other site 342610008027 Sulfatase; Region: Sulfatase; cl10460 342610008028 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 342610008029 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 342610008030 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610008031 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 342610008032 S-adenosylmethionine binding site [chemical binding]; other site 342610008033 Isochorismatase family; Region: Isochorismatase; pfam00857 342610008034 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 342610008035 catalytic triad [active] 342610008036 conserved cis-peptide bond; other site 342610008037 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases; Region: CE4_PuuE_like; cd10979 342610008038 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 342610008039 putative active site [active] 342610008040 putative catalytic site [active] 342610008041 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases; Region: CE4_PuuE_like; cd10979 342610008042 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 342610008043 putative active site [active] 342610008044 putative catalytic site [active] 342610008045 Protein of unknown function (DUF3750); Region: DUF3750; pfam12570 342610008046 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 342610008047 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 342610008048 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 342610008049 TIR domain; Region: TIR_2; cl15770 342610008050 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 342610008051 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 342610008052 Protein of unknown function (DUF1838); Region: DUF1838; pfam08894 342610008053 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 342610008054 CoenzymeA binding site [chemical binding]; other site 342610008055 subunit interaction site [polypeptide binding]; other site 342610008056 PHB binding site; other site 342610008057 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 342610008058 enoyl-CoA hydratase; Provisional; Region: PRK06127 342610008059 substrate binding site [chemical binding]; other site 342610008060 oxyanion hole (OAH) forming residues; other site 342610008061 trimer interface [polypeptide binding]; other site 342610008062 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 342610008063 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 342610008064 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 342610008065 N-terminal plug; other site 342610008066 ligand-binding site [chemical binding]; other site 342610008067 Type II cohesin domain, interaction partner of dockerin; Region: Type_II_cohesin; cd08547 342610008068 dockerin binding interface; other site 342610008069 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 342610008070 Prostaglandin dehydrogenases; Region: PGDH; cd05288 342610008071 NAD(P) binding site [chemical binding]; other site 342610008072 substrate binding site [chemical binding]; other site 342610008073 dimer interface [polypeptide binding]; other site 342610008074 Glutaredoxin 2 [Posttranslational modification, protein turnover, chaperones]; Region: GrxB; COG2999 342610008075 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 342610008076 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 342610008077 N-terminal domain interface [polypeptide binding]; other site 342610008078 dimer interface [polypeptide binding]; other site 342610008079 substrate binding pocket (H-site) [chemical binding]; other site 342610008080 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 342610008081 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 342610008082 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 342610008083 active site 342610008084 catalytic residues [active] 342610008085 metal binding site [ion binding]; metal-binding site 342610008086 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 342610008087 CoA-transferase family III; Region: CoA_transf_3; pfam02515 342610008088 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 342610008089 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 342610008090 substrate binding site [chemical binding]; other site 342610008091 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 342610008092 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 342610008093 substrate binding site [chemical binding]; other site 342610008094 ligand binding site [chemical binding]; other site 342610008095 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 342610008096 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 342610008097 FAD binding domain; Region: FAD_binding_4; pfam01565 342610008098 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 342610008099 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 342610008100 DNA-binding site [nucleotide binding]; DNA binding site 342610008101 UTRA domain; Region: UTRA; cl01230 342610008102 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 342610008103 Coenzyme A binding pocket [chemical binding]; other site 342610008104 Protein of unknown function, DUF606; Region: DUF606; cl01273 342610008105 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 342610008106 FMN binding site [chemical binding]; other site 342610008107 dimer interface [polypeptide binding]; other site 342610008108 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 342610008109 ligand binding site [chemical binding]; other site 342610008110 flexible hinge region; other site 342610008111 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 342610008112 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 342610008113 FtsX-like permease family; Region: FtsX; cl15850 342610008114 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 342610008115 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 342610008116 Walker A/P-loop; other site 342610008117 ATP binding site [chemical binding]; other site 342610008118 Q-loop/lid; other site 342610008119 ABC transporter signature motif; other site 342610008120 Walker B; other site 342610008121 D-loop; other site 342610008122 H-loop/switch region; other site 342610008123 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 342610008124 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 342610008125 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 342610008126 Predicted deacylase [General function prediction only]; Region: COG3608 342610008127 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 342610008128 putative active site [active] 342610008129 Zn binding site [ion binding]; other site 342610008130 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 342610008131 ATP-grasp domain; Region: ATP-grasp_4; cl03087 342610008132 choline dehydrogenase; Validated; Region: PRK02106 342610008133 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610008134 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 342610008135 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 342610008136 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 342610008137 Domain of unknown function (DUF4202); Region: DUF4202; pfam13875 342610008138 Membrane transport protein; Region: Mem_trans; cl09117 342610008139 dipeptidyl carboxypeptidase II; Provisional; Region: PRK10280 342610008140 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 342610008141 active site 342610008142 Zn binding site [ion binding]; other site 342610008143 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like6; cd05664 342610008144 amidohydrolase; Region: amidohydrolases; TIGR01891 342610008145 metal binding site [ion binding]; metal-binding site 342610008146 putative dimer interface [polypeptide binding]; other site 342610008147 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 342610008148 Helix-turn-helix domains; Region: HTH; cl00088 342610008149 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 342610008150 dimerization interface [polypeptide binding]; other site 342610008151 Protein of unknown function (DUF1611); Region: DUF1611; pfam07755 342610008152 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 342610008153 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 342610008154 active site 342610008155 HupE / UreJ protein; Region: HupE_UreJ; cl01011 342610008156 Membrane glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: MdoH; COG2943 342610008157 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 342610008158 Ligand binding site; other site 342610008159 DXD motif; other site 342610008160 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 342610008161 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 342610008162 fatty acid metabolism regulator; Provisional; Region: PRK04984 342610008163 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 342610008164 DNA-binding site [nucleotide binding]; DNA binding site 342610008165 FCD domain; Region: FCD; cl11656 342610008166 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; cd00625 342610008167 transmembrane helices; other site 342610008168 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 342610008169 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 342610008170 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 342610008171 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 342610008172 Flagellin N-methylase; Region: FliB; cl00497 342610008173 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 342610008174 Transglycosylase SLT domain; Region: SLT_2; pfam13406 342610008175 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 342610008176 N-acetyl-D-glucosamine binding site [chemical binding]; other site 342610008177 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 342610008178 YcgL domain; Region: YcgL; cl01189 342610008179 ribonuclease D; Provisional; Region: PRK10829 342610008180 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 342610008181 catalytic site [active] 342610008182 putative active site [active] 342610008183 putative substrate binding site [chemical binding]; other site 342610008184 HRDC domain; Region: HRDC; cl02578 342610008185 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 342610008186 AMP-binding enzyme; Region: AMP-binding; cl15778 342610008187 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 342610008188 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 342610008189 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 342610008190 Outer membrane lipoprotein Slp family; Region: Slp; cl01164 342610008191 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 342610008192 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 342610008193 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610008194 Alpha amylase catalytic domain found in archaeal and bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_arch_bac_AmyA; cd11313 342610008195 active site 342610008196 catalytic site [active] 342610008197 maltodextrin glucosidase; Provisional; Region: PRK10785 342610008198 Flagellar L-ring protein; Region: FlgH; cl00905 342610008199 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12900 342610008200 SEC-C motif; Region: SEC-C; pfam02810 342610008201 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 342610008202 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 342610008203 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 342610008204 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 342610008205 dimer interface [polypeptide binding]; other site 342610008206 phosphorylation site [posttranslational modification] 342610008207 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 342610008208 ATP binding site [chemical binding]; other site 342610008209 Mg2+ binding site [ion binding]; other site 342610008210 G-X-G motif; other site 342610008211 Response regulator receiver domain; Region: Response_reg; pfam00072 342610008212 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 342610008213 active site 342610008214 phosphorylation site [posttranslational modification] 342610008215 intermolecular recognition site; other site 342610008216 Response regulator receiver domain; Region: Response_reg; pfam00072 342610008217 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 342610008218 active site 342610008219 phosphorylation site [posttranslational modification] 342610008220 intermolecular recognition site; other site 342610008221 dimerization interface [polypeptide binding]; other site 342610008222 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 342610008223 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 342610008224 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 342610008225 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 342610008226 RNA binding surface [nucleotide binding]; other site 342610008227 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 342610008228 probable active site [active] 342610008229 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 342610008230 ScpA/B protein; Region: ScpA_ScpB; cl00598 342610008231 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 342610008232 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 342610008233 anthranilate synthase component I; Provisional; Region: PRK13564 342610008234 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 342610008235 chorismate binding enzyme; Region: Chorismate_bind; cl10555 342610008236 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 342610008237 Glutamine amidotransferase class-I; Region: GATase; pfam00117 342610008238 glutamine binding [chemical binding]; other site 342610008239 catalytic triad [active] 342610008240 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 342610008241 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 342610008242 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 342610008243 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 342610008244 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 342610008245 active site 342610008246 ribulose/triose binding site [chemical binding]; other site 342610008247 phosphate binding site [ion binding]; other site 342610008248 substrate (anthranilate) binding pocket [chemical binding]; other site 342610008249 product (indole) binding pocket [chemical binding]; other site 342610008250 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 342610008251 active site 342610008252 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 342610008253 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 342610008254 pyridoxal 5'-phosphate binding site [chemical binding]; other site 342610008255 catalytic residue [active] 342610008256 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 342610008257 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 342610008258 substrate binding site [chemical binding]; other site 342610008259 active site 342610008260 catalytic residues [active] 342610008261 heterodimer interface [polypeptide binding]; other site 342610008262 YCII-related domain; Region: YCII; cl00999 342610008263 RF-1 domain; Region: RF-1; cl02875 342610008264 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 342610008265 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 342610008266 TPR motif; other site 342610008267 binding surface 342610008268 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 342610008269 binding surface 342610008270 TPR motif; other site 342610008271 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 342610008272 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 342610008273 binding surface 342610008274 TPR motif; other site 342610008275 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 342610008276 binding surface 342610008277 TPR motif; other site 342610008278 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 342610008279 TPR motif; other site 342610008280 binding surface 342610008281 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 342610008282 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 342610008283 active site 342610008284 phosphorylation site [posttranslational modification] 342610008285 intermolecular recognition site; other site 342610008286 dimerization interface [polypeptide binding]; other site 342610008287 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 342610008288 DNA binding site [nucleotide binding] 342610008289 proteobacterial dedicated sortase system histidine kinase; Region: marine_sort_HK; TIGR03785 342610008290 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 342610008291 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 342610008292 ATP binding site [chemical binding]; other site 342610008293 Mg2+ binding site [ion binding]; other site 342610008294 G-X-G motif; other site 342610008295 Mechanosensitive ion channel; Region: MS_channel; pfam00924 342610008296 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 342610008297 TPR motif; other site 342610008298 binding surface 342610008299 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 342610008300 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 342610008301 putative molybdopterin cofactor binding site [chemical binding]; other site 342610008302 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 342610008303 putative molybdopterin cofactor binding site; other site 342610008304 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 342610008305 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 342610008306 Integral membrane protein (DUF2244); Region: DUF2244; cl02302 342610008307 Protein of unknown function (DUF2855); Region: DUF2855; pfam11017 342610008308 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 342610008309 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 342610008310 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 342610008311 Predicted aminopeptidase (DUF2265); Region: DUF2265; pfam10023 342610008312 DNA topoisomerase IB, C-terminal catalytic domain. Topoisomerase I promotes the relaxation of both positive and negative DNA superhelical tension by introducing a transient single-stranded break in duplex DNA. This function is vital for the processes of...; Region: Topo_IB_C; cd00659 342610008313 active site 342610008314 DNA binding site [nucleotide binding] 342610008315 Int/Topo IB signature motif; other site 342610008316 catalytic residues [active] 342610008317 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 342610008318 Helix-turn-helix domains; Region: HTH; cl00088 342610008319 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR9; cd08274 342610008320 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 342610008321 putative NAD(P) binding site [chemical binding]; other site 342610008322 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 342610008323 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 342610008324 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 342610008325 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 342610008326 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 342610008327 Alpha amylase catalytic domain found in bacterial and eukaryotic Alpha amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac_euk_AmyA; cd11317 342610008328 active site 342610008329 Ca binding site [ion binding]; other site 342610008330 catalytic site [active] 342610008331 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 342610008332 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 342610008333 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 342610008334 DNA-binding site [nucleotide binding]; DNA binding site 342610008335 UTRA domain; Region: UTRA; cl01230 342610008336 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 342610008337 YicI alpha-xylosidase is a glycosyl hydrolase family 31 (GH31) enzyme that catalyzes the release of an alpha-xylosyl residue from the non-reducing end of alpha-xyloside substrates such as alpha-xylosyl fluoride and isoprimeverose. YicI forms a...; Region: GH31_xylosidase_YicI; cd06593 342610008338 active site 342610008339 homotrimer interface [polypeptide binding]; other site 342610008340 catalytic site [active] 342610008341 homohexamer (dimer of homotrimers) interface [polypeptide binding]; other site 342610008342 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 342610008343 DctM-like transporters; Region: DctM; pfam06808 342610008344 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 342610008345 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 342610008346 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 342610008347 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610008348 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 342610008349 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 342610008350 ligand-binding site [chemical binding]; other site 342610008351 Cation efflux family; Region: Cation_efflux; cl00316 342610008352 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 342610008353 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 342610008354 DNA binding residues [nucleotide binding] 342610008355 dimer interface [polypeptide binding]; other site 342610008356 putative metal binding site [ion binding]; other site 342610008357 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 342610008358 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 342610008359 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 342610008360 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 342610008361 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 342610008362 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 342610008363 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 342610008364 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 342610008365 Helix-turn-helix domains; Region: HTH; cl00088 342610008366 sulfite oxidase; Provisional; Region: PLN00177 342610008367 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 342610008368 Moco binding site; other site 342610008369 metal coordination site [ion binding]; other site 342610008370 dimerization interface [polypeptide binding]; other site 342610008371 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 342610008372 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 342610008373 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 342610008374 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 342610008375 active site 342610008376 catalytic tetrad [active] 342610008377 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 342610008378 ATP phosphoribosyltransferase; Region: HisG; cl15266 342610008379 HisG, C-terminal domain; Region: HisG_C; cl06867 342610008380 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 342610008381 histidinol dehydrogenase; Region: hisD; TIGR00069 342610008382 NAD binding site [chemical binding]; other site 342610008383 dimerization interface [polypeptide binding]; other site 342610008384 product binding site; other site 342610008385 substrate binding site [chemical binding]; other site 342610008386 zinc binding site [ion binding]; other site 342610008387 catalytic residues [active] 342610008388 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 342610008389 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 342610008390 pyridoxal 5'-phosphate binding site [chemical binding]; other site 342610008391 homodimer interface [polypeptide binding]; other site 342610008392 catalytic residue [active] 342610008393 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 342610008394 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 342610008395 active site 342610008396 motif I; other site 342610008397 motif II; other site 342610008398 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 342610008399 putative active site pocket [active] 342610008400 4-fold oligomerization interface [polypeptide binding]; other site 342610008401 metal binding residues [ion binding]; metal-binding site 342610008402 3-fold/trimer interface [polypeptide binding]; other site 342610008403 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 342610008404 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 342610008405 putative active site [active] 342610008406 oxyanion strand; other site 342610008407 catalytic triad [active] 342610008408 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 342610008409 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 342610008410 catalytic residues [active] 342610008411 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 342610008412 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 342610008413 homodimer interface [polypeptide binding]; other site 342610008414 substrate-cofactor binding pocket; other site 342610008415 catalytic residue [active] 342610008416 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 342610008417 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 342610008418 substrate binding site [chemical binding]; other site 342610008419 glutamase interaction surface [polypeptide binding]; other site 342610008420 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 342610008421 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 342610008422 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 342610008423 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 342610008424 YceI-like domain; Region: YceI; cl01001 342610008425 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 342610008426 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 342610008427 putative dimer interface [polypeptide binding]; other site 342610008428 MAPEG family; Region: MAPEG; cl09190 342610008429 adenylate kinase; Reviewed; Region: adk; PRK00279 342610008430 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 342610008431 AMP-binding site [chemical binding]; other site 342610008432 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 342610008433 heat shock protein 90; Provisional; Region: PRK05218 342610008434 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 342610008435 ATP binding site [chemical binding]; other site 342610008436 Mg2+ binding site [ion binding]; other site 342610008437 G-X-G motif; other site 342610008438 recombination protein RecR; Reviewed; Region: recR; PRK00076 342610008439 RecR protein; Region: RecR; pfam02132 342610008440 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 342610008441 putative active site [active] 342610008442 putative metal-binding site [ion binding]; other site 342610008443 tetramer interface [polypeptide binding]; other site 342610008444 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 342610008445 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14949 342610008446 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 342610008447 Walker A motif; other site 342610008448 ATP binding site [chemical binding]; other site 342610008449 Walker B motif; other site 342610008450 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610008451 arginine finger; other site 342610008452 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 342610008453 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 342610008454 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 342610008455 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 342610008456 active site 342610008457 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 342610008458 Protein of unknown function (DUF692); Region: DUF692; cl01263 342610008459 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 342610008460 Uncharacterized protein family (UPF0075); Region: UPF0075; cl04217 342610008461 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610008462 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610008463 Protein of unknown function (DUF2956); Region: DUF2956; pfam11169 342610008464 YHYH protein; Region: YHYH; pfam14240 342610008465 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610008466 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 342610008467 Domain of unknown function DUF20; Region: UPF0118; pfam01594 342610008468 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 342610008469 active site 342610008470 TIGR01777 family protein; Region: yfcH 342610008471 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610008472 NAD(P) binding site [chemical binding]; other site 342610008473 active site 342610008474 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 342610008475 FtsX-like permease family; Region: FtsX; cl15850 342610008476 Herpesvirus latent membrane protein 1 (LMP1); Region: Herpes_LMP1; pfam05297 342610008477 FtsX-like permease family; Region: FtsX; cl15850 342610008478 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 342610008479 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 342610008480 Walker A/P-loop; other site 342610008481 ATP binding site [chemical binding]; other site 342610008482 Q-loop/lid; other site 342610008483 ABC transporter signature motif; other site 342610008484 Walker B; other site 342610008485 D-loop; other site 342610008486 H-loop/switch region; other site 342610008487 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 342610008488 active site 342610008489 catalytic triad [active] 342610008490 oxyanion hole [active] 342610008491 switch loop; other site 342610008492 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 342610008493 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 342610008494 FMN binding site [chemical binding]; other site 342610008495 active site 342610008496 catalytic residues [active] 342610008497 substrate binding site [chemical binding]; other site 342610008498 Bacterial protein of unknown function (DUF898); Region: DUF898; cl01738 342610008499 Peptidase family M48; Region: Peptidase_M48; cl12018 342610008500 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 342610008501 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 342610008502 HIGH motif; other site 342610008503 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 342610008504 active site 342610008505 KMSKS motif; other site 342610008506 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 342610008507 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 342610008508 active site 342610008509 phosphorylation site [posttranslational modification] 342610008510 intermolecular recognition site; other site 342610008511 dimerization interface [polypeptide binding]; other site 342610008512 kynureninase; Region: kynureninase; TIGR01814 342610008513 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 342610008514 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 342610008515 catalytic residue [active] 342610008516 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 342610008517 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 342610008518 putative acyltransferase; Provisional; Region: PRK05790 342610008519 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 342610008520 dimer interface [polypeptide binding]; other site 342610008521 active site 342610008522 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 342610008523 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 342610008524 DNA binding residues [nucleotide binding] 342610008525 putative dimer interface [polypeptide binding]; other site 342610008526 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 342610008527 isovaleryl-CoA dehydrogenase; Region: PLN02519 342610008528 substrate binding site [chemical binding]; other site 342610008529 FAD binding site [chemical binding]; other site 342610008530 catalytic base [active] 342610008531 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 342610008532 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 342610008533 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 342610008534 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 342610008535 enoyl-CoA hydratase; Provisional; Region: PRK05995 342610008536 substrate binding site [chemical binding]; other site 342610008537 oxyanion hole (OAH) forming residues; other site 342610008538 trimer interface [polypeptide binding]; other site 342610008539 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 342610008540 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 342610008541 ATP-grasp domain; Region: ATP-grasp_4; cl03087 342610008542 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 342610008543 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 342610008544 carboxyltransferase (CT) interaction site; other site 342610008545 biotinylation site [posttranslational modification]; other site 342610008546 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 342610008547 active site 342610008548 catalytic residues [active] 342610008549 metal binding site [ion binding]; metal-binding site 342610008550 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_1; cd07818 342610008551 putative hydrophobic ligand binding site [chemical binding]; other site 342610008552 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 342610008553 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 342610008554 ligand binding site; other site 342610008555 oligomer interface; other site 342610008556 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 342610008557 dimer interface [polypeptide binding]; other site 342610008558 N-terminal domain interface [polypeptide binding]; other site 342610008559 sulfate 1 binding site; other site 342610008560 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 342610008561 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 342610008562 Major Facilitator Superfamily; Region: MFS_1; pfam07690 342610008563 putative substrate translocation pore; other site 342610008564 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 342610008565 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 342610008566 active site 342610008567 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 342610008568 active site 2 [active] 342610008569 active site 1 [active] 342610008570 HDOD domain; Region: HDOD; pfam08668 342610008571 tol-pal system protein YbgF; Provisional; Region: PRK10803 342610008572 Tetratricopeptide repeat; Region: TPR_6; pfam13174 342610008573 Tetratricopeptide repeat; Region: TPR_6; pfam13174 342610008574 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 342610008575 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 342610008576 ligand binding site [chemical binding]; other site 342610008577 translocation protein TolB; Provisional; Region: tolB; PRK04792 342610008578 TolB amino-terminal domain; Region: TolB_N; cl00639 342610008579 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 342610008580 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 342610008581 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 342610008582 Gram-negative bacterial tonB protein; Region: TonB; cl10048 342610008583 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 342610008584 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 342610008585 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 342610008586 active site 342610008587 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 342610008588 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 342610008589 Walker A motif; other site 342610008590 ATP binding site [chemical binding]; other site 342610008591 Walker B motif; other site 342610008592 arginine finger; other site 342610008593 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 342610008594 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 342610008595 RuvA N terminal domain; Region: RuvA_N; pfam01330 342610008596 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 342610008597 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 342610008598 active site 342610008599 putative DNA-binding cleft [nucleotide binding]; other site 342610008600 dimer interface [polypeptide binding]; other site 342610008601 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 342610008602 nudix motif; other site 342610008603 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 342610008604 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 342610008605 dimer interface [polypeptide binding]; other site 342610008606 anticodon binding site; other site 342610008607 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 342610008608 homodimer interface [polypeptide binding]; other site 342610008609 motif 1; other site 342610008610 active site 342610008611 motif 2; other site 342610008612 GAD domain; Region: GAD; pfam02938 342610008613 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 342610008614 active site 342610008615 motif 3; other site 342610008616 Protein of unknown function DUF72; Region: DUF72; cl00777 342610008617 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 342610008618 ABC-2 type transporter; Region: ABC2_membrane; cl11417 342610008619 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 342610008620 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610008621 Walker A/P-loop; other site 342610008622 ATP binding site [chemical binding]; other site 342610008623 Q-loop/lid; other site 342610008624 ABC transporter signature motif; other site 342610008625 Walker B; other site 342610008626 D-loop; other site 342610008627 H-loop/switch region; other site 342610008628 Yip1 domain; Region: Yip1; cl12048 342610008629 Protein of unknown function (DUF3025); Region: DUF3025; pfam11227 342610008630 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 342610008631 PA_M28_1_2: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 2. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic...; Region: PA_M28_1_2; cd04821 342610008632 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 342610008633 PA/protease or protease-like domain interface [polypeptide binding]; other site 342610008634 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_1; cd05660 342610008635 metal binding site [ion binding]; metal-binding site 342610008636 asparagine synthetase B; Provisional; Region: asnB; PRK09431 342610008637 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 342610008638 active site 342610008639 dimer interface [polypeptide binding]; other site 342610008640 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 342610008641 Ligand Binding Site [chemical binding]; other site 342610008642 Molecular Tunnel; other site 342610008643 hypothetical protein; Provisional; Region: PRK06194 342610008644 classical (c) SDRs; Region: SDR_c; cd05233 342610008645 NAD(P) binding site [chemical binding]; other site 342610008646 active site 342610008647 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 342610008648 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 342610008649 NADP binding site [chemical binding]; other site 342610008650 dimer interface [polypeptide binding]; other site 342610008651 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 342610008652 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 342610008653 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 342610008654 Ligand Binding Site [chemical binding]; other site 342610008655 Transcriptional regulator [Transcription]; Region: LysR; COG0583 342610008656 Helix-turn-helix domains; Region: HTH; cl00088 342610008657 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 342610008658 dimerization interface [polypeptide binding]; other site 342610008659 excinuclease ABC subunit B; Provisional; Region: PRK05298 342610008660 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 342610008661 ATP binding site [chemical binding]; other site 342610008662 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 342610008663 nucleotide binding region [chemical binding]; other site 342610008664 ATP-binding site [chemical binding]; other site 342610008665 Ultra-violet resistance protein B; Region: UvrB; pfam12344 342610008666 UvrB/uvrC motif; Region: UVR; pfam02151 342610008667 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 342610008668 MatE; Region: MatE; cl10513 342610008669 MatE; Region: MatE; cl10513 342610008670 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 342610008671 electron transport complex protein RnfB; Provisional; Region: PRK05113 342610008672 Putative Fe-S cluster; Region: FeS; pfam04060 342610008673 4Fe-4S binding domain; Region: Fer4; cl02805 342610008674 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 342610008675 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 342610008676 SLBB domain; Region: SLBB; pfam10531 342610008677 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 342610008678 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 342610008679 FMN-binding domain; Region: FMN_bind; cl01081 342610008680 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 342610008681 endonuclease III; Provisional; Region: PRK10702 342610008682 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 342610008683 minor groove reading motif; other site 342610008684 helix-hairpin-helix signature motif; other site 342610008685 substrate binding pocket [chemical binding]; other site 342610008686 active site 342610008687 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 342610008688 DoxX; Region: DoxX; cl00976 342610008689 Transcriptional regulator [Transcription]; Region: LysR; COG0583 342610008690 Helix-turn-helix domains; Region: HTH; cl00088 342610008691 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 342610008692 dimerization interface [polypeptide binding]; other site 342610008693 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 342610008694 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 342610008695 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 342610008696 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 342610008697 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 342610008698 short chain dehydrogenase; Provisional; Region: PRK06197 342610008699 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 342610008700 putative NAD(P) binding site [chemical binding]; other site 342610008701 active site 342610008702 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 342610008703 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 342610008704 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610008705 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610008706 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 342610008707 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 342610008708 Uncharacterized conserved protein (DUF2196); Region: DUF2196; cl02044 342610008709 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 342610008710 Protein of unknown function (DUF3087); Region: DUF3087; pfam11286 342610008711 putative chaperone; Provisional; Region: PRK11678 342610008712 TIGR03545 family protein; Region: TIGR03545 342610008713 TPR repeat; Region: TPR_11; pfam13414 342610008714 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 342610008715 binding surface 342610008716 TPR motif; other site 342610008717 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 342610008718 binding surface 342610008719 TPR motif; other site 342610008720 Gram-negative bacterial tonB protein; Region: TonB; cl10048 342610008721 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 342610008722 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 342610008723 Plant ATP synthase F0; Region: YMF19; cl07975 342610008724 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 342610008725 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 342610008726 Methyltransferase domain; Region: Methyltransf_31; pfam13847 342610008727 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 342610008728 TPR repeat; Region: TPR_11; pfam13414 342610008729 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 342610008730 binding surface 342610008731 TPR motif; other site 342610008732 TPR repeat; Region: TPR_11; pfam13414 342610008733 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 342610008734 binding surface 342610008735 TPR motif; other site 342610008736 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 342610008737 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610008738 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610008739 Late competence development protein ComFB; Region: ComFB; pfam10719 342610008740 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 342610008741 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 342610008742 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 342610008743 NAD binding site [chemical binding]; other site 342610008744 Phe binding site; other site 342610008745 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 342610008746 Helix-turn-helix domains; Region: HTH; cl00088 342610008747 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 342610008748 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 342610008749 dimer interface [polypeptide binding]; other site 342610008750 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 342610008751 active site 342610008752 Fe binding site [ion binding]; other site 342610008753 DNA-binding transcriptional regulator TyrR; Provisional; Region: PRK10820 342610008754 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 342610008755 putative aromatic amino acid binding site; other site 342610008756 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 342610008757 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 342610008758 Walker A motif; other site 342610008759 ATP binding site [chemical binding]; other site 342610008760 Walker B motif; other site 342610008761 arginine finger; other site 342610008762 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 342610008763 cofactor binding site; other site 342610008764 metal binding site [ion binding]; metal-binding site 342610008765 hypothetical protein; Provisional; Region: PRK05415 342610008766 Domain of unknown function (DUF697); Region: DUF697; cl12064 342610008767 YcjX-like family, DUF463; Region: DUF463; cl01193 342610008768 phage shock protein C; Region: phageshock_pspC; TIGR02978 342610008769 PspC domain; Region: PspC; cl00864 342610008770 Phage shock protein B; Region: PspB; cl05946 342610008771 phage shock protein A; Region: phageshock_pspA; TIGR02977 342610008772 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 342610008773 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 342610008774 Walker A motif; other site 342610008775 ATP binding site [chemical binding]; other site 342610008776 Walker B motif; other site 342610008777 arginine finger; other site 342610008778 Helix-turn-helix domains; Region: HTH; cl00088 342610008779 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 342610008780 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 342610008781 peptide binding site [polypeptide binding]; other site 342610008782 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 342610008783 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 342610008784 dimer interface [polypeptide binding]; other site 342610008785 conserved gate region; other site 342610008786 putative PBP binding loops; other site 342610008787 ABC-ATPase subunit interface; other site 342610008788 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapC; COG4171 342610008789 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 342610008790 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 342610008791 dimer interface [polypeptide binding]; other site 342610008792 ABC-ATPase subunit interface; other site 342610008793 putative PBP binding loops; other site 342610008794 antimicrobial peptide ABC transporter ATP-binding protein; Provisional; Region: PRK15093 342610008795 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 342610008796 Walker A/P-loop; other site 342610008797 ATP binding site [chemical binding]; other site 342610008798 Q-loop/lid; other site 342610008799 ABC transporter signature motif; other site 342610008800 Walker B; other site 342610008801 D-loop; other site 342610008802 H-loop/switch region; other site 342610008803 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 342610008804 antimicrobial peptide ABC system ATP-binding protein SapF; Provisional; Region: PRK15112 342610008805 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 342610008806 Walker A/P-loop; other site 342610008807 ATP binding site [chemical binding]; other site 342610008808 Q-loop/lid; other site 342610008809 ABC transporter signature motif; other site 342610008810 Walker B; other site 342610008811 D-loop; other site 342610008812 H-loop/switch region; other site 342610008813 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; cl00816 342610008814 oxaloacetate decarboxylase; Provisional; Region: PRK14040 342610008815 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 342610008816 active site 342610008817 catalytic residues [active] 342610008818 metal binding site [ion binding]; metal-binding site 342610008819 homodimer binding site [polypeptide binding]; other site 342610008820 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 342610008821 carboxyltransferase (CT) interaction site; other site 342610008822 biotinylation site [posttranslational modification]; other site 342610008823 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; cl01458 342610008824 Global regulator protein family; Region: CsrA; cl00670 342610008825 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 342610008826 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 342610008827 motif 1; other site 342610008828 active site 342610008829 motif 2; other site 342610008830 motif 3; other site 342610008831 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 342610008832 DHHA1 domain; Region: DHHA1; pfam02272 342610008833 RecX family; Region: RecX; cl00936 342610008834 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 342610008835 Protein of unknown function, DUF482; Region: DUF482; pfam04339 342610008836 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 342610008837 homoserine O-succinyltransferase; Provisional; Region: PRK05368 342610008838 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 342610008839 proposed active site lysine [active] 342610008840 conserved cys residue [active] 342610008841 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 342610008842 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 342610008843 putative CheA interaction surface; other site 342610008844 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 342610008845 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 342610008846 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 342610008847 Magnesium ion binding site [ion binding]; other site 342610008848 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 342610008849 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 342610008850 active site 342610008851 phosphorylation site [posttranslational modification] 342610008852 intermolecular recognition site; other site 342610008853 dimerization interface [polypeptide binding]; other site 342610008854 CheB methylesterase; Region: CheB_methylest; pfam01339 342610008855 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 342610008856 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 342610008857 putative binding surface; other site 342610008858 active site 342610008859 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 342610008860 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 342610008861 ATP binding site [chemical binding]; other site 342610008862 Mg2+ binding site [ion binding]; other site 342610008863 G-X-G motif; other site 342610008864 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 342610008865 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 342610008866 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 342610008867 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 342610008868 active site 342610008869 phosphorylation site [posttranslational modification] 342610008870 intermolecular recognition site; other site 342610008871 dimerization interface [polypeptide binding]; other site 342610008872 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 342610008873 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 342610008874 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 342610008875 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 342610008876 DNA binding residues [nucleotide binding] 342610008877 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 342610008878 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610008879 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 342610008880 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 342610008881 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610008882 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 342610008883 FHIPEP family; Region: FHIPEP; pfam00771 342610008884 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 342610008885 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 342610008886 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 342610008887 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 342610008888 FliP family; Region: FliP; cl00593 342610008889 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 342610008890 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 342610008891 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 342610008892 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 342610008893 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 342610008894 Protein of unknown function (DUF3757); Region: DUF3757; pfam12582 342610008895 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 342610008896 flagellar biosynthesis chaperone; Validated; Region: fliJ; cl09161 342610008897 Flagellar FliJ protein; Region: FliJ; pfam02050 342610008898 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08972 342610008899 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 342610008900 Walker A motif/ATP binding site; other site 342610008901 Walker B motif; other site 342610008902 flagellar assembly protein H; Validated; Region: fliH; PRK05687 342610008903 Flagellar assembly protein FliH; Region: FliH; pfam02108 342610008904 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 342610008905 MgtE intracellular N domain; Region: MgtE_N; cl15244 342610008906 FliG C-terminal domain; Region: FliG_C; pfam01706 342610008907 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 342610008908 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 342610008909 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 342610008910 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 342610008911 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 342610008912 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 342610008913 active site 342610008914 phosphorylation site [posttranslational modification] 342610008915 intermolecular recognition site; other site 342610008916 dimerization interface [polypeptide binding]; other site 342610008917 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 342610008918 Walker A motif; other site 342610008919 ATP binding site [chemical binding]; other site 342610008920 Walker B motif; other site 342610008921 arginine finger; other site 342610008922 Helix-turn-helix domains; Region: HTH; cl00088 342610008923 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 342610008924 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 342610008925 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 342610008926 dimer interface [polypeptide binding]; other site 342610008927 phosphorylation site [posttranslational modification] 342610008928 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 342610008929 ATP binding site [chemical binding]; other site 342610008930 Mg2+ binding site [ion binding]; other site 342610008931 G-X-G motif; other site 342610008932 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 342610008933 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 342610008934 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 342610008935 Walker A motif; other site 342610008936 ATP binding site [chemical binding]; other site 342610008937 Walker B motif; other site 342610008938 arginine finger; other site 342610008939 Helix-turn-helix domains; Region: HTH; cl00088 342610008940 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 342610008941 flagellin; Reviewed; Region: PRK08869 342610008942 Thiamin pyrophosphokinase, catalytic domain; Region: TPK_catalytic; cl09135 342610008943 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 342610008944 WbqC-like protein family; Region: WbqC; pfam08889 342610008945 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 342610008946 active site 342610008947 substrate binding site [chemical binding]; other site 342610008948 cosubstrate binding site; other site 342610008949 catalytic site [active] 342610008950 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 342610008951 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 342610008952 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 342610008953 inhibitor-cofactor binding pocket; inhibition site 342610008954 pyridoxal 5'-phosphate binding site [chemical binding]; other site 342610008955 catalytic residue [active] 342610008956 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 342610008957 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 342610008958 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 342610008959 Cupin domain; Region: Cupin_2; cl09118 342610008960 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 342610008961 CDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: CDP_GD_SDR_e; cd05252 342610008962 NAD binding site [chemical binding]; other site 342610008963 homotetramer interface [polypeptide binding]; other site 342610008964 homodimer interface [polypeptide binding]; other site 342610008965 substrate binding site [chemical binding]; other site 342610008966 active site 342610008967 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 342610008968 substrate binding site; other site 342610008969 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 342610008970 active site 342610008971 putative glycosyl transferase; Provisional; Region: PRK10073 342610008972 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 342610008973 active site 342610008974 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 342610008975 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 342610008976 active site 342610008977 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 342610008978 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 342610008979 Methyltransferase domain; Region: Methyltransf_31; pfam13847 342610008980 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 342610008981 S-adenosylmethionine binding site [chemical binding]; other site 342610008982 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 342610008983 UDP-galactopyranose mutase; Region: UDP-GALP_mutase; TIGR00031 342610008984 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610008985 UDP-galactopyranose mutase; Region: GLF; pfam03275 342610008986 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 342610008987 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 342610008988 active site 342610008989 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610008990 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 342610008991 NAD(P) binding site [chemical binding]; other site 342610008992 active site 342610008993 AMP-binding enzyme; Region: AMP-binding; cl15778 342610008994 acyl-CoA synthetase; Validated; Region: PRK08308 342610008995 Phosphopantetheine attachment site; Region: PP-binding; cl09936 342610008996 pseudaminic acid biosynthesis N-acetyl transferase; Region: PseH; TIGR03585 342610008997 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 342610008998 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 342610008999 pseudaminic acid synthase; Region: PseI; TIGR03586 342610009000 NeuB family; Region: NeuB; cl00496 342610009001 SAF domain; Region: SAF; cl00555 342610009002 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 342610009003 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 342610009004 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 342610009005 ligand binding site; other site 342610009006 tetramer interface; other site 342610009007 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 342610009008 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 342610009009 inhibitor-cofactor binding pocket; inhibition site 342610009010 pyridoxal 5'-phosphate binding site [chemical binding]; other site 342610009011 catalytic residue [active] 342610009012 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 342610009013 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 342610009014 NAD(P) binding site [chemical binding]; other site 342610009015 homodimer interface [polypeptide binding]; other site 342610009016 substrate binding site [chemical binding]; other site 342610009017 active site 342610009018 Flagellar protein FliS; Region: FliS; cl00654 342610009019 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 342610009020 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 342610009021 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 342610009022 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 342610009023 FlaG protein; Region: FlaG; cl00591 342610009024 flagellin; Provisional; Region: PRK12802 342610009025 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 342610009026 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 342610009027 flagellin; Provisional; Region: PRK12802 342610009028 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 342610009029 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 342610009030 flagellin; Provisional; Region: PRK12802 342610009031 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 342610009032 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 342610009033 BNR repeat-like domain; Region: BNR_2; pfam13088 342610009034 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 342610009035 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 342610009036 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK05683 342610009037 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 342610009038 Rod binding protein; Region: Rod-binding; cl01626 342610009039 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 342610009040 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 342610009041 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 342610009042 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 342610009043 Flagellar L-ring protein; Region: FlgH; cl00905 342610009044 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 342610009045 Flagella basal body rod protein; Region: Flg_bb_rod; cl16924 342610009046 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 342610009047 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 342610009048 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 342610009049 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 342610009050 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 342610009051 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 342610009052 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 342610009053 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 342610009054 FlgD Ig-like domain; Region: FlgD_ig; cl15790 342610009055 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12631 342610009056 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 342610009057 Flagella basal body rod protein; Region: Flg_bb_rod; cl16924 342610009058 flagellar basal-body rod protein FlgB; Region: FlgB; TIGR01396 342610009059 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 342610009060 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 342610009061 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 342610009062 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 342610009063 Response regulator receiver domain; Region: Response_reg; pfam00072 342610009064 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 342610009065 active site 342610009066 phosphorylation site [posttranslational modification] 342610009067 intermolecular recognition site; other site 342610009068 dimerization interface [polypeptide binding]; other site 342610009069 SAF domain; Region: SAF; cl00555 342610009070 SAF-like; Region: SAF_2; pfam13144 342610009071 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 342610009072 FlgN protein; Region: FlgN; cl09176 342610009073 LPP20 lipoprotein; Region: LPP20; cl15824 342610009074 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 342610009075 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 342610009076 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 342610009077 N-terminal plug; other site 342610009078 ligand-binding site [chemical binding]; other site 342610009079 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 342610009080 leukotriene A-4 hydrolase/aminopeptidase; Region: leuko_A4_hydro; TIGR02411 342610009081 Peptidase M1 family contains leukotriene A4 hydrolase; Region: M1_LTA4H; cd09599 342610009082 active site 342610009083 Zn binding site [ion binding]; other site 342610009084 Leukotriene A4 hydrolase, C-terminal; Region: Leuk-A4-hydro_C; pfam09127 342610009085 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 342610009086 Smr domain; Region: Smr; cl02619 342610009087 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 342610009088 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 342610009089 dimerization interface [polypeptide binding]; other site 342610009090 ATP binding site [chemical binding]; other site 342610009091 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 342610009092 dimerization interface [polypeptide binding]; other site 342610009093 ATP binding site [chemical binding]; other site 342610009094 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 342610009095 putative active site [active] 342610009096 catalytic triad [active] 342610009097 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 342610009098 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 342610009099 substrate binding pocket [chemical binding]; other site 342610009100 membrane-bound complex binding site; other site 342610009101 hinge residues; other site 342610009102 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 342610009103 N-acetyl-D-glucosamine binding site [chemical binding]; other site 342610009104 catalytic residue [active] 342610009105 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 342610009106 nucleoside/Zn binding site; other site 342610009107 dimer interface [polypeptide binding]; other site 342610009108 catalytic motif [active] 342610009109 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 342610009110 YaeQ protein; Region: YaeQ; cl01913 342610009111 GMP synthase; Reviewed; Region: guaA; PRK00074 342610009112 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 342610009113 AMP/PPi binding site [chemical binding]; other site 342610009114 candidate oxyanion hole; other site 342610009115 catalytic triad [active] 342610009116 potential glutamine specificity residues [chemical binding]; other site 342610009117 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 342610009118 ATP Binding subdomain [chemical binding]; other site 342610009119 Ligand Binding sites [chemical binding]; other site 342610009120 Dimerization subdomain; other site 342610009121 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 342610009122 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 342610009123 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 342610009124 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 342610009125 active site 342610009126 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 342610009127 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 342610009128 generic binding surface II; other site 342610009129 generic binding surface I; other site 342610009130 GTP-binding protein Der; Reviewed; Region: PRK00093 342610009131 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 342610009132 G1 box; other site 342610009133 GTP/Mg2+ binding site [chemical binding]; other site 342610009134 Switch I region; other site 342610009135 G2 box; other site 342610009136 Switch II region; other site 342610009137 G3 box; other site 342610009138 G4 box; other site 342610009139 G5 box; other site 342610009140 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 342610009141 G1 box; other site 342610009142 GTP/Mg2+ binding site [chemical binding]; other site 342610009143 Switch I region; other site 342610009144 G2 box; other site 342610009145 G3 box; other site 342610009146 Switch II region; other site 342610009147 G4 box; other site 342610009148 G5 box; other site 342610009149 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 342610009150 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 342610009151 Trp docking motif [polypeptide binding]; other site 342610009152 active site 342610009153 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 342610009154 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 342610009155 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 342610009156 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 342610009157 dimer interface [polypeptide binding]; other site 342610009158 motif 1; other site 342610009159 active site 342610009160 motif 2; other site 342610009161 motif 3; other site 342610009162 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 342610009163 anticodon binding site; other site 342610009164 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 342610009165 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 342610009166 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 342610009167 cytoskeletal protein RodZ; Provisional; Region: PRK10856 342610009168 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 342610009169 non-specific DNA binding site [nucleotide binding]; other site 342610009170 salt bridge; other site 342610009171 sequence-specific DNA binding site [nucleotide binding]; other site 342610009172 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 342610009173 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 342610009174 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 342610009175 binding surface 342610009176 TPR motif; other site 342610009177 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 342610009178 TPR motif; other site 342610009179 binding surface 342610009180 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 342610009181 putative peptidoglycan binding site; other site 342610009182 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 342610009183 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 342610009184 FeS/SAM binding site; other site 342610009185 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 342610009186 active site 342610009187 multimer interface [polypeptide binding]; other site 342610009188 periplasmic folding chaperone; Provisional; Region: PRK10788 342610009189 SurA N-terminal domain; Region: SurA_N_3; cl07813 342610009190 PPIC-type PPIASE domain; Region: Rotamase; cl08278 342610009191 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 342610009192 IHF dimer interface [polypeptide binding]; other site 342610009193 IHF - DNA interface [nucleotide binding]; other site 342610009194 DNA-binding ATP-dependent protease La; Provisional; Region: PRK10787 342610009195 Found in ATP-dependent protease La (LON); Region: LON; smart00464 342610009196 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 342610009197 Walker A motif; other site 342610009198 ATP binding site [chemical binding]; other site 342610009199 Walker B motif; other site 342610009200 arginine finger; other site 342610009201 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 342610009202 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 342610009203 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 342610009204 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 342610009205 Walker A motif; other site 342610009206 ATP binding site [chemical binding]; other site 342610009207 Walker B motif; other site 342610009208 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 342610009209 Clp protease; Region: CLP_protease; pfam00574 342610009210 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 342610009211 oligomer interface [polypeptide binding]; other site 342610009212 active site residues [active] 342610009213 trigger factor; Provisional; Region: tig; PRK01490 342610009214 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 342610009215 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 342610009216 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 342610009217 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 342610009218 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 342610009219 homodimer interface [polypeptide binding]; other site 342610009220 NADP binding site [chemical binding]; other site 342610009221 substrate binding site [chemical binding]; other site 342610009222 Protein of unknown function (DUF1415); Region: DUF1415; cl01301 342610009223 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 342610009224 ABC-type uncharacterized transport system involved in gliding motility, auxiliary component [Cell motility and secretion]; Region: GldG; COG3225 342610009225 ABC-2 type transporter; Region: ABC2_membrane; cl11417 342610009226 gliding motility-associated ABC transporter ATP-binding subunit GldA; Region: GldA_ABC_ATP; TIGR03522 342610009227 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610009228 Walker A/P-loop; other site 342610009229 ATP binding site [chemical binding]; other site 342610009230 Q-loop/lid; other site 342610009231 ABC transporter signature motif; other site 342610009232 Walker B; other site 342610009233 D-loop; other site 342610009234 H-loop/switch region; other site 342610009235 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 342610009236 active site 342610009237 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 342610009238 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 342610009239 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 342610009240 GTPase Era; Reviewed; Region: era; PRK00089 342610009241 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 342610009242 G1 box; other site 342610009243 GTP/Mg2+ binding site [chemical binding]; other site 342610009244 Switch I region; other site 342610009245 G2 box; other site 342610009246 Switch II region; other site 342610009247 G3 box; other site 342610009248 G4 box; other site 342610009249 G5 box; other site 342610009250 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 342610009251 ribonuclease III; Reviewed; Region: rnc; PRK00102 342610009252 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 342610009253 dimerization interface [polypeptide binding]; other site 342610009254 active site 342610009255 metal binding site [ion binding]; metal-binding site 342610009256 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 342610009257 dsRNA binding site [nucleotide binding]; other site 342610009258 signal peptidase I; Provisional; Region: PRK10861 342610009259 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 342610009260 Catalytic site [active] 342610009261 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 342610009262 GTP-binding protein LepA; Provisional; Region: PRK05433 342610009263 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 342610009264 G1 box; other site 342610009265 putative GEF interaction site [polypeptide binding]; other site 342610009266 GTP/Mg2+ binding site [chemical binding]; other site 342610009267 Switch I region; other site 342610009268 G2 box; other site 342610009269 G3 box; other site 342610009270 Switch II region; other site 342610009271 G4 box; other site 342610009272 G5 box; other site 342610009273 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 342610009274 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 342610009275 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 342610009276 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; cl01178 342610009277 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 342610009278 MucB/RseB family; Region: MucB_RseB; pfam03888 342610009279 anti-RNA polymerase sigma factor SigE; Provisional; Region: PRK10863 342610009280 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 342610009281 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 342610009282 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 342610009283 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 342610009284 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 342610009285 DNA binding residues [nucleotide binding] 342610009286 L-aspartate oxidase; Provisional; Region: PRK09077 342610009287 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610009288 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 342610009289 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 342610009290 active site 1 [active] 342610009291 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 342610009292 putative global regulator; Reviewed; Region: PRK09559 342610009293 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 342610009294 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 342610009295 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 342610009296 Nitrogen regulatory protein P-II; Region: P-II; cl00412 342610009297 Nitrogen regulatory protein P-II; Region: P-II; smart00938 342610009298 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 342610009299 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 342610009300 homodimer interface [polypeptide binding]; other site 342610009301 NAD binding pocket [chemical binding]; other site 342610009302 ATP binding pocket [chemical binding]; other site 342610009303 Mg binding site [ion binding]; other site 342610009304 active-site loop [active] 342610009305 Tfp pilus assembly protein PilV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilV; COG4967 342610009306 hypothetical protein; Provisional; Region: PRK10557 342610009307 hypothetical protein; Provisional; Region: PRK10506 342610009308 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 342610009309 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 342610009310 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 342610009311 Type II transport protein GspH; Region: GspH; pfam12019 342610009312 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 342610009313 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 342610009314 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 342610009315 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 342610009316 PilX N-terminal; Region: PilX_N; pfam14341 342610009317 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 342610009318 LytB protein; Region: LYTB; cl00507 342610009319 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 342610009320 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 342610009321 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 342610009322 lipoprotein signal peptidase; Provisional; Region: PRK14787 342610009323 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 342610009324 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 342610009325 active site 342610009326 HIGH motif; other site 342610009327 nucleotide binding site [chemical binding]; other site 342610009328 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 342610009329 active site 342610009330 KMSKS motif; other site 342610009331 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 342610009332 tRNA binding surface [nucleotide binding]; other site 342610009333 anticodon binding site; other site 342610009334 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 342610009335 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 342610009336 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 342610009337 active site 342610009338 Riboflavin kinase; Region: Flavokinase; cl03312 342610009339 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 342610009340 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 342610009341 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 342610009342 PA_M28_2: Protease-associated (PA) domain, peptidase family M28, subfamily-2. A subfamily of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions; Region: PA_M28_2; cd04815 342610009343 PA/protease or protease-like domain interface [polypeptide binding]; other site 342610009344 M28 Zn-Peptidase Plasma glutamate carboxypeptidase; Region: M28_Pgcp_like; cd03883 342610009345 metal binding site [ion binding]; metal-binding site 342610009346 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 342610009347 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 342610009348 probable active site [active] 342610009349 tRNA pseudouridine synthase C; Region: DUF446; cl01187 342610009350 Protein of unknown function (DUF3549); Region: DUF3549; pfam12069 342610009351 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 342610009352 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 342610009353 Protein of unknown function (DUF3192); Region: DUF3192; pfam11399 342610009354 Syd protein (SUKH-2); Region: Syd; cl06405 342610009355 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 342610009356 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 342610009357 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 342610009358 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 342610009359 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 342610009360 Protein of unknown function (DUF3192); Region: DUF3192; pfam11399 342610009361 tartrate dehydrogenase; Provisional; Region: PRK08194 342610009362 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 342610009363 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 342610009364 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 342610009365 active site 342610009366 tetramer interface; other site 342610009367 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 342610009368 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610009369 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 342610009370 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610009371 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 342610009372 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 342610009373 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 342610009374 RfbF is a putative dTDP-rhamnosyl transferase; Region: GT2_RfbF_like; cd02526 342610009375 L-rhamnosyltransferase; Region: rhamnosyltran; TIGR01556 342610009376 Ligand binding site; other site 342610009377 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 342610009378 active site 342610009379 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 342610009380 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 342610009381 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 342610009382 Probable Catalytic site; other site 342610009383 metal-binding site 342610009384 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 342610009385 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 342610009386 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 342610009387 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 342610009388 active site 342610009389 nucleotide binding site [chemical binding]; other site 342610009390 HIGH motif; other site 342610009391 KMSKS motif; other site 342610009392 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 342610009393 LicD family; Region: LicD; cl01378 342610009394 Sulfotransferase family; Region: Sulfotransfer_3; cl14559 342610009395 This family is most closely related to the GT1 family of glycosyltransferases. ExpE7 in Sinorhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucans (exopolysaccharide II); Region: GT1_ExpE7_like; cd03823 342610009396 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 342610009397 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 342610009398 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 342610009399 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 342610009400 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 342610009401 Probable Catalytic site; other site 342610009402 metal-binding site 342610009403 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 342610009404 Sulfotransferase family; Region: Sulfotransfer_3; cl14559 342610009405 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 342610009406 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 342610009407 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 342610009408 Sulfotransferase family; Region: Sulfotransfer_3; cl14559 342610009409 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 342610009410 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 342610009411 general secretion pathway protein G; Region: typeII_sec_gspG; TIGR01710 342610009412 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 342610009413 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 342610009414 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 342610009415 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 342610009416 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 342610009417 general secretory pathway protein E; Region: type_II_gspE; TIGR02533 342610009418 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 342610009419 Walker A motif; other site 342610009420 ATP binding site [chemical binding]; other site 342610009421 Walker B motif; other site 342610009422 general secretion pathway protein D; Region: type_II_gspD; TIGR02517 342610009423 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 342610009424 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 342610009425 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 342610009426 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 342610009427 Walker A/P-loop; other site 342610009428 ATP binding site [chemical binding]; other site 342610009429 Q-loop/lid; other site 342610009430 ABC transporter signature motif; other site 342610009431 Walker B; other site 342610009432 D-loop; other site 342610009433 H-loop/switch region; other site 342610009434 ABC-2 type transporter; Region: ABC2_membrane; cl11417 342610009435 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 342610009436 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 342610009437 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 342610009438 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 342610009439 Mg++ binding site [ion binding]; other site 342610009440 putative catalytic motif [active] 342610009441 substrate binding site [chemical binding]; other site 342610009442 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 342610009443 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 342610009444 UDP-glucose 4-epimerase; Region: PLN02240 342610009445 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 342610009446 NAD binding site [chemical binding]; other site 342610009447 homodimer interface [polypeptide binding]; other site 342610009448 active site 342610009449 substrate binding site [chemical binding]; other site 342610009450 VacJ like lipoprotein; Region: VacJ; cl01073 342610009451 TPR repeat; Region: TPR_11; pfam13414 342610009452 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 342610009453 binding surface 342610009454 TPR motif; other site 342610009455 Cytochrome C biogenesis protein; Region: CcmH; cl01179 342610009456 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 342610009457 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 342610009458 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 342610009459 CcmE; Region: CcmE; cl00994 342610009460 Heme exporter protein D (CcmD); Region: CcmD; cl11475 342610009461 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 342610009462 CcmB protein; Region: CcmB; cl01016 342610009463 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610009464 Walker A/P-loop; other site 342610009465 ATP binding site [chemical binding]; other site 342610009466 ABC transporter; Region: ABC_tran; pfam00005 342610009467 Q-loop/lid; other site 342610009468 ABC transporter signature motif; other site 342610009469 Walker B; other site 342610009470 D-loop; other site 342610009471 H-loop/switch region; other site 342610009472 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 342610009473 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 342610009474 recombinase A; Provisional; Region: recA; PRK09354 342610009475 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 342610009476 hexamer interface [polypeptide binding]; other site 342610009477 Walker A motif; other site 342610009478 ATP binding site [chemical binding]; other site 342610009479 Walker B motif; other site 342610009480 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 342610009481 Protein of unknown function (DUF3224); Region: DUF3224; pfam11528 342610009482 Competence-damaged protein; Region: CinA; cl00666 342610009483 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 342610009484 MutS domain I; Region: MutS_I; pfam01624 342610009485 MutS domain II; Region: MutS_II; pfam05188 342610009486 MutS family domain IV; Region: MutS_IV; pfam05190 342610009487 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 342610009488 Walker A/P-loop; other site 342610009489 ATP binding site [chemical binding]; other site 342610009490 Q-loop/lid; other site 342610009491 ABC transporter signature motif; other site 342610009492 Walker B; other site 342610009493 D-loop; other site 342610009494 H-loop/switch region; other site 342610009495 Response regulator receiver domain; Region: Response_reg; pfam00072 342610009496 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 342610009497 active site 342610009498 phosphorylation site [posttranslational modification] 342610009499 intermolecular recognition site; other site 342610009500 dimerization interface [polypeptide binding]; other site 342610009501 CTP synthetase; Validated; Region: pyrG; PRK05380 342610009502 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 342610009503 Catalytic site [active] 342610009504 active site 342610009505 UTP binding site [chemical binding]; other site 342610009506 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 342610009507 active site 342610009508 putative oxyanion hole; other site 342610009509 catalytic triad [active] 342610009510 enolase; Provisional; Region: eno; PRK00077 342610009511 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 342610009512 dimer interface [polypeptide binding]; other site 342610009513 metal binding site [ion binding]; metal-binding site 342610009514 substrate binding pocket [chemical binding]; other site 342610009515 2-isopropylmalate synthase; Validated; Region: PRK00915 342610009516 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 342610009517 active site 342610009518 catalytic residues [active] 342610009519 metal binding site [ion binding]; metal-binding site 342610009520 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 342610009521 tartrate dehydrogenase; Provisional; Region: PRK08194 342610009522 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 342610009523 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 342610009524 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 342610009525 substrate binding site [chemical binding]; other site 342610009526 ligand binding site [chemical binding]; other site 342610009527 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 342610009528 substrate binding site [chemical binding]; other site 342610009529 Transcriptional regulators [Transcription]; Region: PurR; COG1609 342610009530 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 342610009531 DNA binding site [nucleotide binding] 342610009532 domain linker motif; other site 342610009533 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 342610009534 dimerization interface [polypeptide binding]; other site 342610009535 ligand binding site [chemical binding]; other site 342610009536 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 342610009537 CreA protein; Region: CreA; pfam05981 342610009538 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 342610009539 Putative carbohydrate binding domain; Region: CBM_X; cl05621 342610009540 Glycosyltransferase family 36; Region: Glyco_transf_36; pfam06165 342610009541 Glycosyltransferase 36 associated family; Region: GT36_AF; pfam06205 342610009542 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 342610009543 MFS/sugar transport protein; Region: MFS_2; pfam13347 342610009544 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 342610009545 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610009546 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610009547 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 342610009548 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610009549 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610009550 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610009551 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 342610009552 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 342610009553 substrate binding pocket [chemical binding]; other site 342610009554 membrane-bound complex binding site; other site 342610009555 hinge residues; other site 342610009556 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 342610009557 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 342610009558 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610009559 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 342610009560 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 342610009561 active site 342610009562 NTP binding site [chemical binding]; other site 342610009563 metal binding triad [ion binding]; metal-binding site 342610009564 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 342610009565 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 342610009566 dUTPase; Region: dUTPase_2; pfam08761 342610009567 dCTP pyrophosphatase; Provisional; Region: 56; PHA02602 342610009568 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 342610009569 DEAD-like helicases superfamily; Region: DEXDc; smart00487 342610009570 ATP binding site [chemical binding]; other site 342610009571 Mg++ binding site [ion binding]; other site 342610009572 motif III; other site 342610009573 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 342610009574 nucleotide binding region [chemical binding]; other site 342610009575 ATP-binding site [chemical binding]; other site 342610009576 Gram-negative bacterial tonB protein; Region: TonB; cl10048 342610009577 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 342610009578 active site 342610009579 dimerization interface [polypeptide binding]; other site 342610009580 HemN family oxidoreductase; Provisional; Region: PRK05660 342610009581 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 342610009582 FeS/SAM binding site; other site 342610009583 HemN C-terminal domain; Region: HemN_C; pfam06969 342610009584 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 342610009585 Protein of unknown function (DUF2884); Region: DUF2884; cl08135 342610009586 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 342610009587 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 342610009588 LrgB-like family; Region: LrgB; cl00596 342610009589 LrgA family; Region: LrgA; cl00608 342610009590 PEP-CTERM-box response regulator transcription factor; Region: PEP_resp_reg; TIGR02915 342610009591 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 342610009592 active site 342610009593 phosphorylation site [posttranslational modification] 342610009594 intermolecular recognition site; other site 342610009595 dimerization interface [polypeptide binding]; other site 342610009596 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 342610009597 Walker A motif; other site 342610009598 ATP binding site [chemical binding]; other site 342610009599 Walker B motif; other site 342610009600 arginine finger; other site 342610009601 Helix-turn-helix domains; Region: HTH; cl00088 342610009602 putative PEP-CTERM system histidine kinase; Region: PEP_his_kin; TIGR02916 342610009603 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 342610009604 ATP binding site [chemical binding]; other site 342610009605 Mg2+ binding site [ion binding]; other site 342610009606 G-X-G motif; other site 342610009607 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 342610009608 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 342610009609 dimer interface [polypeptide binding]; other site 342610009610 active site 342610009611 CoA binding pocket [chemical binding]; other site 342610009612 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 342610009613 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 342610009614 putative substrate translocation pore; other site 342610009615 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 342610009616 putative substrate translocation pore; other site 342610009617 Major Facilitator Superfamily; Region: MFS_1; pfam07690 342610009618 Fatty acid cis/trans isomerase (CTI); Region: CTI; pfam06934 342610009619 Transcriptional regulator [Transcription]; Region: LysR; COG0583 342610009620 Helix-turn-helix domains; Region: HTH; cl00088 342610009621 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 342610009622 putative effector binding pocket; other site 342610009623 dimerization interface [polypeptide binding]; other site 342610009624 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 342610009625 NADH(P)-binding; Region: NAD_binding_10; pfam13460 342610009626 NAD binding site [chemical binding]; other site 342610009627 substrate binding site [chemical binding]; other site 342610009628 putative active site [active] 342610009629 MgtC family; Region: MgtC; pfam02308 342610009630 Platelet-activating factor acetylhydrolase, isoform II; Region: PAF-AH_p_II; pfam03403 342610009631 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 342610009632 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 342610009633 CoenzymeA binding site [chemical binding]; other site 342610009634 subunit interaction site [polypeptide binding]; other site 342610009635 PHB binding site; other site 342610009636 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 342610009637 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 342610009638 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 342610009639 DNA binding residues [nucleotide binding] 342610009640 Transcriptional regulator [Transcription]; Region: LysR; COG0583 342610009641 Helix-turn-helix domains; Region: HTH; cl00088 342610009642 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 342610009643 dimerization interface [polypeptide binding]; other site 342610009644 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 342610009645 Phosphate-selective porin O and P; Region: Porin_O_P; cl01524 342610009646 transcriptional regulator PhoU; Provisional; Region: PRK11115 342610009647 PhoU domain; Region: PhoU; pfam01895 342610009648 PhoU domain; Region: PhoU; pfam01895 342610009649 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 342610009650 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 342610009651 Walker A/P-loop; other site 342610009652 ATP binding site [chemical binding]; other site 342610009653 Q-loop/lid; other site 342610009654 ABC transporter signature motif; other site 342610009655 Walker B; other site 342610009656 D-loop; other site 342610009657 H-loop/switch region; other site 342610009658 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 342610009659 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 342610009660 dimer interface [polypeptide binding]; other site 342610009661 conserved gate region; other site 342610009662 putative PBP binding loops; other site 342610009663 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 342610009664 ABC-ATPase subunit interface; other site 342610009665 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 342610009666 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 342610009667 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 342610009668 dimer interface [polypeptide binding]; other site 342610009669 conserved gate region; other site 342610009670 putative PBP binding loops; other site 342610009671 ABC-ATPase subunit interface; other site 342610009672 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 342610009673 Phosphate transporter family; Region: PHO4; cl00396 342610009674 Phosphate transporter family; Region: PHO4; cl00396 342610009675 Protein of unknown function DUF47; Region: PhoU_div; pfam01865 342610009676 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 342610009677 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 342610009678 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 342610009679 polyphosphate kinase 1; Region: poly_P_kin; TIGR03705 342610009680 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 342610009681 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 342610009682 Catalytic C-terminal domain, first repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C1_like; cd09164 342610009683 domain interface [polypeptide binding]; other site 342610009684 active site 342610009685 catalytic site [active] 342610009686 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 342610009687 putative active site [active] 342610009688 catalytic site [active] 342610009689 exopolyphosphatase; Provisional; Region: PRK10854 342610009690 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 342610009691 Domain of unknown function (DUF4282); Region: DUF4282; pfam14110 342610009692 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 342610009693 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 342610009694 catalytic residue [active] 342610009695 Phosphoglycerate kinase; Region: PGK; pfam00162 342610009696 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 342610009697 substrate binding site [chemical binding]; other site 342610009698 hinge regions; other site 342610009699 ADP binding site [chemical binding]; other site 342610009700 catalytic site [active] 342610009701 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 342610009702 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610009703 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 342610009704 transketolase; Reviewed; Region: PRK12753 342610009705 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 342610009706 TPP-binding site [chemical binding]; other site 342610009707 dimer interface [polypeptide binding]; other site 342610009708 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 342610009709 PYR/PP interface [polypeptide binding]; other site 342610009710 dimer interface [polypeptide binding]; other site 342610009711 TPP binding site [chemical binding]; other site 342610009712 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 342610009713 S-adenosylmethionine synthetase; Validated; Region: PRK05250 342610009714 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 342610009715 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 342610009716 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 342610009717 Peptidase family M48; Region: Peptidase_M48; cl12018 342610009718 Mechanosensitive ion channel; Region: MS_channel; pfam00924 342610009719 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 342610009720 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 342610009721 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 342610009722 dimer interface [polypeptide binding]; other site 342610009723 phosphorylation site [posttranslational modification] 342610009724 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 342610009725 ATP binding site [chemical binding]; other site 342610009726 Mg2+ binding site [ion binding]; other site 342610009727 G-X-G motif; other site 342610009728 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 342610009729 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 342610009730 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 342610009731 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 342610009732 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 342610009733 catalytic triad [active] 342610009734 dimer interface [polypeptide binding]; other site 342610009735 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 342610009736 Domain of unknown function (DUF329); Region: DUF329; cl01144 342610009737 Protein of unknown function (DUF1342); Region: DUF1342; cl01892 342610009738 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 342610009739 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 342610009740 CoA-binding site [chemical binding]; other site 342610009741 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 342610009742 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 342610009743 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 342610009744 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 342610009745 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 342610009746 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 342610009747 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 342610009748 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 342610009749 Pilin (bacterial filament); Region: Pilin; pfam00114 342610009750 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 342610009751 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 342610009752 dimerization interface [polypeptide binding]; other site 342610009753 active site 342610009754 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 342610009755 catalytic motif [active] 342610009756 Catalytic residue [active] 342610009757 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 342610009758 amidase catalytic site [active] 342610009759 substrate binding site [chemical binding]; other site 342610009760 Zn binding residues [ion binding]; other site 342610009761 CobD/Cbib protein; Region: CobD_Cbib; cl00561 342610009762 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 342610009763 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 342610009764 DNA-binding site [nucleotide binding]; DNA binding site 342610009765 FCD domain; Region: FCD; cl11656 342610009766 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 342610009767 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 342610009768 dimer interface [polypeptide binding]; other site 342610009769 TPP-binding site [chemical binding]; other site 342610009770 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 342610009771 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 342610009772 E3 interaction surface; other site 342610009773 lipoyl attachment site [posttranslational modification]; other site 342610009774 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 342610009775 E3 interaction surface; other site 342610009776 lipoyl attachment site [posttranslational modification]; other site 342610009777 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 342610009778 E3 interaction surface; other site 342610009779 lipoyl attachment site [posttranslational modification]; other site 342610009780 e3 binding domain; Region: E3_binding; pfam02817 342610009781 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 342610009782 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 342610009783 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610009784 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 342610009785 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 342610009786 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 342610009787 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 342610009788 active site 342610009789 Zn binding site [ion binding]; other site 342610009790 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 342610009791 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 342610009792 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 342610009793 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 342610009794 HDOD domain; Region: HDOD; pfam08668 342610009795 Protein of unknown function, DUF481; Region: DUF481; cl01213 342610009796 Protein of unknown function, DUF481; Region: DUF481; cl01213 342610009797 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 342610009798 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610009799 metal binding site [ion binding]; metal-binding site 342610009800 active site 342610009801 I-site; other site 342610009802 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 342610009803 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 342610009804 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 342610009805 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 342610009806 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610009807 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 342610009808 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 342610009809 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610009810 Domain of unknown function (DUF3410); Region: DUF3410; pfam11890 342610009811 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 342610009812 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 342610009813 intersubunit interface [polypeptide binding]; other site 342610009814 active site 342610009815 Zn2+ binding site [ion binding]; other site 342610009816 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 342610009817 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 342610009818 ligand binding site [chemical binding]; other site 342610009819 flexible hinge region; other site 342610009820 Helix-turn-helix domains; Region: HTH; cl00088 342610009821 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610009822 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 342610009823 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 342610009824 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 342610009825 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 342610009826 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 342610009827 active site 342610009828 phosphorylation site [posttranslational modification] 342610009829 intermolecular recognition site; other site 342610009830 dimerization interface [polypeptide binding]; other site 342610009831 Helix-turn-helix domains; Region: HTH; cl00088 342610009832 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610009833 metal binding site [ion binding]; metal-binding site 342610009834 active site 342610009835 I-site; other site 342610009836 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 342610009837 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 342610009838 Ribosomal S4P (gammaproteobacterial); Region: Ribosomal_S4Pg; pfam11993 342610009839 Peptidase family M23; Region: Peptidase_M23; pfam01551 342610009840 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 342610009841 Nucleoid-associated protein [General function prediction only]; Region: COG3081 342610009842 37-kD nucleoid-associated bacterial protein; Region: NA37; cl15473 342610009843 Protein of unknown function (DUF1414); Region: DUF1414; cl01175 342610009844 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 342610009845 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 342610009846 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 342610009847 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 342610009848 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 342610009849 Major Facilitator Superfamily; Region: MFS_1; pfam07690 342610009850 putative substrate translocation pore; other site 342610009851 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 342610009852 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 342610009853 dimer interface [polypeptide binding]; other site 342610009854 active site 342610009855 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 342610009856 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 342610009857 YfcL protein; Region: YfcL; pfam08891 342610009858 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 342610009859 Protein of unknown function, DUF462; Region: DUF462; cl01190 342610009860 Domon-like ligand-binding domains; Region: DOMON_like; cl14783 342610009861 putative ligand binding site [chemical binding]; other site 342610009862 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 342610009863 active site 342610009864 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 342610009865 catalytic motif [active] 342610009866 Catalytic residue [active] 342610009867 RIO kinase family; RIO1, RIO3 and similar proteins, catalytic domain. The RIO kinase catalytic domain family is part of a larger superfamily, that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein...; Region: RIO1_like; cd05145 342610009868 ATP binding site [chemical binding]; other site 342610009869 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_actino; TIGR03535 342610009870 Putative 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (THP succinyltransferase), C-terminal left-handed parallel alpha-helix (LbH) domain: This group is composed of mostly uncharacterized proteins containing an N-terminal...; Region: LbH_THP_succinylT_putative; cd04649 342610009871 putative trimer interface [polypeptide binding]; other site 342610009872 putative CoA binding site [chemical binding]; other site 342610009873 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 342610009874 Membrane transport protein; Region: Mem_trans; cl09117 342610009875 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 342610009876 Low molecular weight phosphatase family; Region: LMWPc; cd00115 342610009877 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 342610009878 active site 342610009879 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 342610009880 putative DNA binding site [nucleotide binding]; other site 342610009881 dimerization interface [polypeptide binding]; other site 342610009882 putative Zn2+ binding site [ion binding]; other site 342610009883 Mechanosensitive ion channel; Region: MS_channel; pfam00924 342610009884 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 342610009885 RNase H is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner; Region: RNase_H; cd06222 342610009886 RNA/DNA hybrid binding site [nucleotide binding]; other site 342610009887 active site 342610009888 YcxB-like protein; Region: YcxB; pfam14317 342610009889 MltA-interacting protein MipA; Region: MipA; cl01504 342610009890 Protein of unknown function (DUF1439); Region: DUF1439; cl06345 342610009891 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 342610009892 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 342610009893 homodimer interface [polypeptide binding]; other site 342610009894 substrate-cofactor binding pocket; other site 342610009895 pyridoxal 5'-phosphate binding site [chemical binding]; other site 342610009896 catalytic residue [active] 342610009897 Predicted membrane protein (DUF2306); Region: DUF2306; cl02232 342610009898 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 342610009899 putative active site [active] 342610009900 putative metal binding site [ion binding]; other site 342610009901 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 342610009902 Sulfatase; Region: Sulfatase; cl10460 342610009903 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610009904 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610009905 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610009906 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 342610009907 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 342610009908 active site 342610009909 phosphorylation site [posttranslational modification] 342610009910 intermolecular recognition site; other site 342610009911 dimerization interface [polypeptide binding]; other site 342610009912 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 342610009913 DNA binding site [nucleotide binding] 342610009914 two-component sensor protein; Provisional; Region: cpxA; PRK09470 342610009915 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 342610009916 dimerization interface [polypeptide binding]; other site 342610009917 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 342610009918 dimer interface [polypeptide binding]; other site 342610009919 phosphorylation site [posttranslational modification] 342610009920 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 342610009921 ATP binding site [chemical binding]; other site 342610009922 Mg2+ binding site [ion binding]; other site 342610009923 G-X-G motif; other site 342610009924 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 342610009925 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 342610009926 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 342610009927 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 342610009928 N-terminal plug; other site 342610009929 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 342610009930 ligand-binding site [chemical binding]; other site 342610009931 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 342610009932 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 342610009933 putative metal binding site [ion binding]; other site 342610009934 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 342610009935 HSP70 interaction site [polypeptide binding]; other site 342610009936 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 342610009937 Substrate binding site; other site 342610009938 metal-binding site 342610009939 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 342610009940 Phosphotransferase enzyme family; Region: APH; pfam01636 342610009941 OstA-like protein; Region: OstA; cl00844 342610009942 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 342610009943 Organic solvent tolerance protein; Region: OstA_C; pfam04453 342610009944 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 342610009945 SurA N-terminal domain; Region: SurA_N_3; cl07813 342610009946 PPIC-type PPIASE domain; Region: Rotamase; cl08278 342610009947 PPIC-type PPIASE domain; Region: Rotamase; cl08278 342610009948 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 342610009949 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 342610009950 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 342610009951 Protein of unknown function (DUF525); Region: DUF525; cl01119 342610009952 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 342610009953 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 342610009954 active site 342610009955 metal binding site [ion binding]; metal-binding site 342610009956 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 342610009957 dimerization interface [polypeptide binding]; other site 342610009958 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 342610009959 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 342610009960 dimer interface [polypeptide binding]; other site 342610009961 putative CheW interface [polypeptide binding]; other site 342610009962 aspartate kinase III; Validated; Region: PRK09084 342610009963 AAK_AKiii-LysC-EC: Amino Acid Kinase Superfamily (AAK), AKiii-LysC-EC: this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKIII. AKIII is a monofunctional class enzyme (LysC) found in some...; Region: AAK_AKiii-LysC-EC; cd04258 342610009964 nucleotide binding site [chemical binding]; other site 342610009965 putative catalytic residues [active] 342610009966 aspartate binding site [chemical binding]; other site 342610009967 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_1; cd04932 342610009968 lysine allosteric regulatory site; other site 342610009969 dimer interface [polypeptide binding]; other site 342610009970 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 342610009971 dimer interface [polypeptide binding]; other site 342610009972 amidase; Provisional; Region: PRK08137 342610009973 Amidase; Region: Amidase; cl11426 342610009974 Uncharacterized ACR, COG1430; Region: DUF192; cl00627 342610009975 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 342610009976 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 342610009977 substrate binding site [chemical binding]; other site 342610009978 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 342610009979 substrate binding site [chemical binding]; other site 342610009980 ligand binding site [chemical binding]; other site 342610009981 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 342610009982 Strictosidine synthase; Region: Str_synth; pfam03088 342610009983 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 342610009984 intracellular protease, PfpI family; Region: PfpI; TIGR01382 342610009985 proposed catalytic triad [active] 342610009986 conserved cys residue [active] 342610009987 hypothetical protein; Provisional; Region: PRK01254 342610009988 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 342610009989 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 342610009990 Transglycosylase SLT domain; Region: SLT_2; pfam13406 342610009991 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 342610009992 N-acetyl-D-glucosamine binding site [chemical binding]; other site 342610009993 catalytic residue [active] 342610009994 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 342610009995 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 342610009996 active site 342610009997 catalytic residues [active] 342610009998 metal binding site [ion binding]; metal-binding site 342610009999 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 342610010000 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 342610010001 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610010002 Walker A/P-loop; other site 342610010003 ATP binding site [chemical binding]; other site 342610010004 Q-loop/lid; other site 342610010005 ABC transporter signature motif; other site 342610010006 Walker B; other site 342610010007 D-loop; other site 342610010008 H-loop/switch region; other site 342610010009 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 342610010010 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 342610010011 Sulfatase; Region: Sulfatase; cl10460 342610010012 Fatty acyltransferase-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: fatty_acyltransferase_like; cd01846 342610010013 active site 342610010014 catalytic triad [active] 342610010015 oxyanion hole [active] 342610010016 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 342610010017 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 342610010018 putative active site [active] 342610010019 heme pocket [chemical binding]; other site 342610010020 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 342610010021 putative active site [active] 342610010022 heme pocket [chemical binding]; other site 342610010023 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610010024 metal binding site [ion binding]; metal-binding site 342610010025 active site 342610010026 I-site; other site 342610010027 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 342610010028 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 342610010029 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 342610010030 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610010031 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 342610010032 N-terminal plug; other site 342610010033 ligand-binding site [chemical binding]; other site 342610010034 exonuclease subunit SbcD; Provisional; Region: PRK10966 342610010035 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 342610010036 active site 342610010037 metal binding site [ion binding]; metal-binding site 342610010038 DNA binding site [nucleotide binding] 342610010039 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 342610010040 exonuclease subunit SbcC; Provisional; Region: PRK10246 342610010041 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610010042 Walker A/P-loop; other site 342610010043 ATP binding site [chemical binding]; other site 342610010044 Q-loop/lid; other site 342610010045 exonuclease subunit SbcC; Provisional; Region: PRK10246 342610010046 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610010047 ABC transporter signature motif; other site 342610010048 Walker B; other site 342610010049 D-loop; other site 342610010050 H-loop/switch region; other site 342610010051 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 342610010052 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 342610010053 AAA domain; Region: AAA_21; pfam13304 342610010054 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610010055 Walker A/P-loop; other site 342610010056 ATP binding site [chemical binding]; other site 342610010057 Q-loop/lid; other site 342610010058 ABC transporter signature motif; other site 342610010059 Walker B; other site 342610010060 D-loop; other site 342610010061 H-loop/switch region; other site 342610010062 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 342610010063 D-galactonate transporter; Region: 2A0114; TIGR00893 342610010064 putative substrate translocation pore; other site 342610010065 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 342610010066 ATP binding site [chemical binding]; other site 342610010067 putative Mg++ binding site [ion binding]; other site 342610010068 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 342610010069 nucleotide binding region [chemical binding]; other site 342610010070 ATP-binding site [chemical binding]; other site 342610010071 Double zinc ribbon; Region: DZR; pfam12773 342610010072 GDA1/CD39 (nucleoside phosphatase) family; Region: GDA1_CD39; cl02218 342610010073 glutaredoxin 2; Provisional; Region: PRK10387 342610010074 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 342610010075 C-terminal, alpha helical domain of Glutaredoxin 2; Region: GST_C_GRX2; cd03199 342610010076 N-terminal domain interface [polypeptide binding]; other site 342610010077 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 342610010078 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 342610010079 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 342610010080 Protein of unknown function (DUF502); Region: DUF502; cl01107 342610010081 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 342610010082 dimerization interface [polypeptide binding]; other site 342610010083 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 342610010084 dimer interface [polypeptide binding]; other site 342610010085 putative CheW interface [polypeptide binding]; other site 342610010086 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 342610010087 Helix-turn-helix domains; Region: HTH; cl00088 342610010088 Helix-turn-helix domains; Region: HTH; cl00088 342610010089 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 342610010090 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 342610010091 N-terminal plug; other site 342610010092 ligand-binding site [chemical binding]; other site 342610010093 Sodium:solute symporter family; Region: SSF; cl00456 342610010094 Uncharacterized conserved protein [Function unknown]; Region: COG3535 342610010095 Protein of unknown function (DUF917); Region: DUF917; pfam06032 342610010096 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 342610010097 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 342610010098 RNA binding surface [nucleotide binding]; other site 342610010099 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 342610010100 active site 342610010101 uracil binding [chemical binding]; other site 342610010102 Tetratricopeptide repeat; Region: TPR_16; pfam13432 342610010103 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 342610010104 binding surface 342610010105 TPR motif; other site 342610010106 TPR repeat; Region: TPR_11; pfam13414 342610010107 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 342610010108 TPR motif; other site 342610010109 binding surface 342610010110 Sulfotransferase family; Region: Sulfotransfer_3; cl14559 342610010111 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 342610010112 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 342610010113 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 342610010114 N-terminal plug; other site 342610010115 ligand-binding site [chemical binding]; other site 342610010116 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 342610010117 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 342610010118 heme-binding site [chemical binding]; other site 342610010119 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 342610010120 FAD binding pocket [chemical binding]; other site 342610010121 FAD binding motif [chemical binding]; other site 342610010122 phosphate binding motif [ion binding]; other site 342610010123 beta-alpha-beta structure motif; other site 342610010124 NAD binding pocket [chemical binding]; other site 342610010125 Heme binding pocket [chemical binding]; other site 342610010126 NnrS protein; Region: NnrS; cl01258 342610010127 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 342610010128 GAF domain; Region: GAF; cl15785 342610010129 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 342610010130 Walker A motif; other site 342610010131 ATP binding site [chemical binding]; other site 342610010132 Walker B motif; other site 342610010133 arginine finger; other site 342610010134 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 342610010135 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 342610010136 PAS domain; Region: PAS_9; pfam13426 342610010137 putative active site [active] 342610010138 heme pocket [chemical binding]; other site 342610010139 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 342610010140 PAS domain; Region: PAS_9; pfam13426 342610010141 putative active site [active] 342610010142 heme pocket [chemical binding]; other site 342610010143 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 342610010144 dimer interface [polypeptide binding]; other site 342610010145 putative CheW interface [polypeptide binding]; other site 342610010146 cyanate hydratase; Validated; Region: PRK02866 342610010147 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 342610010148 oligomer interface [polypeptide binding]; other site 342610010149 active site 342610010150 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 342610010151 active site 342610010152 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 342610010153 Catalytic domain of Protein Kinases; Region: PKc; cd00180 342610010154 active site 342610010155 ATP binding site [chemical binding]; other site 342610010156 substrate binding site [chemical binding]; other site 342610010157 activation loop (A-loop); other site 342610010158 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 342610010159 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 342610010160 catalytic site [active] 342610010161 putative active site [active] 342610010162 putative substrate binding site [chemical binding]; other site 342610010163 dimer interface [polypeptide binding]; other site 342610010164 GTPase RsgA; Reviewed; Region: PRK12288 342610010165 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 342610010166 RNA binding site [nucleotide binding]; other site 342610010167 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 342610010168 GTPase/Zn-binding domain interface [polypeptide binding]; other site 342610010169 GTP/Mg2+ binding site [chemical binding]; other site 342610010170 G4 box; other site 342610010171 G5 box; other site 342610010172 G1 box; other site 342610010173 Switch I region; other site 342610010174 G2 box; other site 342610010175 G3 box; other site 342610010176 Switch II region; other site 342610010177 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 342610010178 Predicted permeases [General function prediction only]; Region: RarD; COG2962 342610010179 EamA-like transporter family; Region: EamA; cl01037 342610010180 EamA-like transporter family; Region: EamA; cl01037 342610010181 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 342610010182 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 342610010183 active site 342610010184 catalytic site [active] 342610010185 MerC mercury resistance protein; Region: MerC; cl03934 342610010186 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 342610010187 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 342610010188 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 342610010189 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 342610010190 active site 342610010191 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 342610010192 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 342610010193 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 342610010194 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 342610010195 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 342610010196 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 342610010197 MoxR-like ATPases [General function prediction only]; Region: COG0714 342610010198 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 342610010199 Walker A motif; other site 342610010200 ATP binding site [chemical binding]; other site 342610010201 Walker B motif; other site 342610010202 arginine finger; other site 342610010203 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 342610010204 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 342610010205 MarC family integral membrane protein; Region: MarC; cl00919 342610010206 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 342610010207 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 342610010208 putative deacylase active site [active] 342610010209 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610010210 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 342610010211 Aminopeptidase P, N-terminal domain; Region: AMP_N; cl08433 342610010212 proline aminopeptidase P II; Provisional; Region: PRK10879 342610010213 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 342610010214 active site 342610010215 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 342610010216 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 342610010217 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 342610010218 substrate binding site [chemical binding]; other site 342610010219 dimer interface [polypeptide binding]; other site 342610010220 ATP binding site [chemical binding]; other site 342610010221 NH_hydro_CaPnhB: A subgroup of nucleoside hydrolases similar to Corynebacterium ammoniagenes Purine/pyrimidine nucleoside hydrolase (pnhB). Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These...; Region: nuc_hydro_CaPnhB; cd02650 342610010222 active site 342610010223 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 342610010224 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 342610010225 tetramer (dimer of dimers) interface [polypeptide binding]; other site 342610010226 active site 342610010227 dimer interface [polypeptide binding]; other site 342610010228 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 342610010229 active site 342610010230 8-oxo-dGMP binding site [chemical binding]; other site 342610010231 nudix motif; other site 342610010232 metal binding site [ion binding]; metal-binding site 342610010233 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 342610010234 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 342610010235 SEC-C motif; Region: SEC-C; pfam02810 342610010236 Peptidase family M23; Region: Peptidase_M23; pfam01551 342610010237 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 342610010238 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 342610010239 cell division protein FtsZ; Validated; Region: PRK09330 342610010240 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 342610010241 nucleotide binding site [chemical binding]; other site 342610010242 SulA interaction site; other site 342610010243 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 342610010244 Cell division protein FtsA; Region: FtsA; cl11496 342610010245 Cell division protein FtsA; Region: FtsA; cl11496 342610010246 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 342610010247 Cell division protein FtsQ; Region: FtsQ; pfam03799 342610010248 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 342610010249 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 342610010250 ATP-grasp domain; Region: ATP-grasp_4; cl03087 342610010251 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 342610010252 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 342610010253 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 342610010254 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 342610010255 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 342610010256 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 342610010257 active site 342610010258 homodimer interface [polypeptide binding]; other site 342610010259 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 342610010260 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 342610010261 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 342610010262 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 342610010263 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 342610010264 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 342610010265 Mg++ binding site [ion binding]; other site 342610010266 putative catalytic motif [active] 342610010267 putative substrate binding site [chemical binding]; other site 342610010268 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 342610010269 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 342610010270 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 342610010271 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 342610010272 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 342610010273 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 342610010274 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 342610010275 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 342610010276 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 342610010277 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 342610010278 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 342610010279 Septum formation initiator; Region: DivIC; cl11433 342610010280 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 342610010281 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 342610010282 cell division protein MraZ; Reviewed; Region: PRK00326 342610010283 MraZ protein; Region: MraZ; pfam02381 342610010284 MraZ protein; Region: MraZ; pfam02381 342610010285 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 342610010286 classical (c) SDRs; Region: SDR_c; cd05233 342610010287 NAD(P) binding site [chemical binding]; other site 342610010288 active site 342610010289 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 342610010290 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 342610010291 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 342610010292 Transcriptional regulators [Transcription]; Region: FadR; COG2186 342610010293 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 342610010294 DNA-binding site [nucleotide binding]; DNA binding site 342610010295 FCD domain; Region: FCD; cl11656 342610010296 glycerol kinase; Provisional; Region: glpK; PRK00047 342610010297 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 342610010298 N- and C-terminal domain interface [polypeptide binding]; other site 342610010299 active site 342610010300 MgATP binding site [chemical binding]; other site 342610010301 catalytic site [active] 342610010302 metal binding site [ion binding]; metal-binding site 342610010303 glycerol binding site [chemical binding]; other site 342610010304 homotetramer interface [polypeptide binding]; other site 342610010305 homodimer interface [polypeptide binding]; other site 342610010306 FBP binding site [chemical binding]; other site 342610010307 protein IIAGlc interface [polypeptide binding]; other site 342610010308 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 342610010309 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 342610010310 active site 342610010311 catalytic residues [active] 342610010312 Protein of unknown function (DUF2167); Region: DUF2167; cl01938 342610010313 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 342610010314 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 342610010315 Domain of unknown function (DUF3536); Region: DUF3536; pfam12055 342610010316 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 342610010317 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 342610010318 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 342610010319 DNA binding residues [nucleotide binding] 342610010320 Gram-negative bacterial tonB protein; Region: TonB; cl10048 342610010321 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610010322 metal binding site [ion binding]; metal-binding site 342610010323 active site 342610010324 I-site; other site 342610010325 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 342610010326 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 342610010327 Walker A motif; other site 342610010328 ATP binding site [chemical binding]; other site 342610010329 Walker B motif; other site 342610010330 arginine finger; other site 342610010331 Response regulator receiver domain; Region: Response_reg; pfam00072 342610010332 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 342610010333 active site 342610010334 phosphorylation site [posttranslational modification] 342610010335 intermolecular recognition site; other site 342610010336 dimerization interface [polypeptide binding]; other site 342610010337 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610010338 metal binding site [ion binding]; metal-binding site 342610010339 active site 342610010340 I-site; other site 342610010341 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 342610010342 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 342610010343 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 342610010344 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 342610010345 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 342610010346 dimer interface [polypeptide binding]; other site 342610010347 phosphorylation site [posttranslational modification] 342610010348 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 342610010349 ATP binding site [chemical binding]; other site 342610010350 Mg2+ binding site [ion binding]; other site 342610010351 G-X-G motif; other site 342610010352 Response regulator receiver domain; Region: Response_reg; pfam00072 342610010353 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 342610010354 active site 342610010355 phosphorylation site [posttranslational modification] 342610010356 intermolecular recognition site; other site 342610010357 dimerization interface [polypeptide binding]; other site 342610010358 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 342610010359 putative binding surface; other site 342610010360 active site 342610010361 Peptidase S8 family domain, uncharacterized subfamily 1; Region: Peptidases_S8_1; cd07487 342610010362 active site 342610010363 catalytic triad [active] 342610010364 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 342610010365 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 342610010366 active site 342610010367 phosphorylation site [posttranslational modification] 342610010368 intermolecular recognition site; other site 342610010369 dimerization interface [polypeptide binding]; other site 342610010370 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610010371 metal binding site [ion binding]; metal-binding site 342610010372 active site 342610010373 I-site; other site 342610010374 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 342610010375 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 342610010376 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 342610010377 dimer interface [polypeptide binding]; other site 342610010378 phosphorylation site [posttranslational modification] 342610010379 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 342610010380 ATP binding site [chemical binding]; other site 342610010381 Mg2+ binding site [ion binding]; other site 342610010382 G-X-G motif; other site 342610010383 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 342610010384 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 342610010385 active site 342610010386 phosphorylation site [posttranslational modification] 342610010387 intermolecular recognition site; other site 342610010388 sensor protein QseC; Provisional; Region: PRK10337 342610010389 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 342610010390 dimer interface [polypeptide binding]; other site 342610010391 phosphorylation site [posttranslational modification] 342610010392 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 342610010393 ATP binding site [chemical binding]; other site 342610010394 Mg2+ binding site [ion binding]; other site 342610010395 G-X-G motif; other site 342610010396 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 342610010397 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 342610010398 2-oxoglutarate dehydrogenase, E2 component, dihydrolipoamide succinyltransferase; Region: SucB_Actino; TIGR02927 342610010399 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 342610010400 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 342610010401 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 342610010402 Protein of unknown function VcgC/VcgE (DUF2780); Region: DUF2780; pfam11075 342610010403 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 342610010404 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 342610010405 Helix-turn-helix domains; Region: HTH; cl00088 342610010406 WYL domain; Region: WYL; cl14852 342610010407 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 342610010408 active site 342610010409 Beta-tubulin folding cofactor D [Posttranslational modification, protein turnover, chaperones / Cytoskeleton]; Region: CIN1; COG5234 342610010410 RDD family; Region: RDD; cl00746 342610010411 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 342610010412 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 342610010413 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 342610010414 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 342610010415 multifunctional aminopeptidase A; Provisional; Region: PRK00913 342610010416 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 342610010417 interface (dimer of trimers) [polypeptide binding]; other site 342610010418 Substrate-binding/catalytic site; other site 342610010419 Zn-binding sites [ion binding]; other site 342610010420 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 342610010421 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 342610010422 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 342610010423 HIGH motif; other site 342610010424 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 342610010425 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 342610010426 active site 342610010427 KMSKS motif; other site 342610010428 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 342610010429 tRNA binding surface [nucleotide binding]; other site 342610010430 anticodon binding site; other site 342610010431 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 342610010432 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 342610010433 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 342610010434 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 342610010435 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610010436 metal binding site [ion binding]; metal-binding site 342610010437 active site 342610010438 I-site; other site 342610010439 Protein of unknown function (DUF3016); Region: DUF3016; pfam11454 342610010440 MltA-interacting protein MipA; Region: MipA; cl01504 342610010441 Protein of unknown function (DUF3019); Region: DUF3019; pfam11456 342610010442 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 342610010443 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 342610010444 active site 342610010445 phosphorylation site [posttranslational modification] 342610010446 intermolecular recognition site; other site 342610010447 dimerization interface [polypeptide binding]; other site 342610010448 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 342610010449 DNA binding site [nucleotide binding] 342610010450 proteobacterial dedicated sortase system histidine kinase; Region: marine_sort_HK; TIGR03785 342610010451 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 342610010452 dimer interface [polypeptide binding]; other site 342610010453 phosphorylation site [posttranslational modification] 342610010454 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 342610010455 ATP binding site [chemical binding]; other site 342610010456 Mg2+ binding site [ion binding]; other site 342610010457 G-X-G motif; other site 342610010458 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 342610010459 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 342610010460 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 342610010461 Phosphotransferase enzyme family; Region: APH; pfam01636 342610010462 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 342610010463 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 342610010464 catalytic residues [active] 342610010465 hinge region; other site 342610010466 alpha helical domain; other site 342610010467 MASE1; Region: MASE1; pfam05231 342610010468 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610010469 metal binding site [ion binding]; metal-binding site 342610010470 active site 342610010471 I-site; other site 342610010472 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 342610010473 ligand binding site [chemical binding]; other site 342610010474 active site 342610010475 UGI interface [polypeptide binding]; other site 342610010476 catalytic site [active] 342610010477 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 342610010478 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 342610010479 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 342610010480 catalytic residue [active] 342610010481 homoserine kinase; Provisional; Region: PRK01212 342610010482 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 342610010483 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 342610010484 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 342610010485 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli...; Region: AAK_AK-HSDH; cd04257 342610010486 putative catalytic residues [active] 342610010487 putative nucleotide binding site [chemical binding]; other site 342610010488 putative aspartate binding site [chemical binding]; other site 342610010489 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 342610010490 dimer interface [polypeptide binding]; other site 342610010491 putative threonine allosteric regulatory site; other site 342610010492 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 342610010493 putative threonine allosteric regulatory site; other site 342610010494 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610010495 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 342610010496 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 342610010497 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 342610010498 ligand binding site; other site 342610010499 oligomer interface; other site 342610010500 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 342610010501 dimer interface [polypeptide binding]; other site 342610010502 N-terminal domain interface [polypeptide binding]; other site 342610010503 sulfate 1 binding site; other site 342610010504 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 342610010505 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 342610010506 putative dimer interface [polypeptide binding]; other site 342610010507 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 342610010508 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 342610010509 dimer interface [polypeptide binding]; other site 342610010510 phosphorylation site [posttranslational modification] 342610010511 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 342610010512 ATP binding site [chemical binding]; other site 342610010513 Mg2+ binding site [ion binding]; other site 342610010514 G-X-G motif; other site 342610010515 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 342610010516 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 342610010517 FeS/SAM binding site; other site 342610010518 Domain of unknown function (DUF4130; Region: DUF4130; cl14836 342610010519 Protein of unknown function (DUF4235); Region: DUF4235; pfam14019 342610010520 AAA domain; Region: AAA_13; pfam13166 342610010521 glycine dehydrogenase; Provisional; Region: PRK05367 342610010522 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 342610010523 tetramer interface [polypeptide binding]; other site 342610010524 pyridoxal 5'-phosphate binding site [chemical binding]; other site 342610010525 catalytic residue [active] 342610010526 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 342610010527 tetramer interface [polypeptide binding]; other site 342610010528 pyridoxal 5'-phosphate binding site [chemical binding]; other site 342610010529 catalytic residue [active] 342610010530 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 342610010531 lipoyl attachment site [posttranslational modification]; other site 342610010532 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 342610010533 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 342610010534 Transcriptional regulator [Transcription]; Region: LysR; COG0583 342610010535 Helix-turn-helix domains; Region: HTH; cl00088 342610010536 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 342610010537 dimerization interface [polypeptide binding]; other site 342610010538 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 342610010539 Haemolysin-III related; Region: HlyIII; cl03831 342610010540 WYL domain; Region: WYL; cl14852 342610010541 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 342610010542 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 342610010543 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 342610010544 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 342610010545 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 342610010546 GIY-YIG motif/motif A; other site 342610010547 putative active site [active] 342610010548 putative metal binding site [ion binding]; other site 342610010549 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 342610010550 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 342610010551 metal binding triad; other site 342610010552 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 342610010553 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 342610010554 metal binding triad; other site 342610010555 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 342610010556 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 342610010557 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 342610010558 putative acyl-acceptor binding pocket; other site 342610010559 PAS domain; Region: PAS_9; pfam13426 342610010560 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 342610010561 PAS fold; Region: PAS_3; pfam08447 342610010562 putative active site [active] 342610010563 heme pocket [chemical binding]; other site 342610010564 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 342610010565 PAS domain; Region: PAS_9; pfam13426 342610010566 putative active site [active] 342610010567 heme pocket [chemical binding]; other site 342610010568 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 342610010569 PAS domain; Region: PAS_9; pfam13426 342610010570 putative active site [active] 342610010571 heme pocket [chemical binding]; other site 342610010572 PAS fold; Region: PAS_3; pfam08447 342610010573 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 342610010574 dimer interface [polypeptide binding]; other site 342610010575 phosphorylation site [posttranslational modification] 342610010576 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 342610010577 ATP binding site [chemical binding]; other site 342610010578 Mg2+ binding site [ion binding]; other site 342610010579 G-X-G motif; other site 342610010580 Response regulator receiver domain; Region: Response_reg; pfam00072 342610010581 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 342610010582 active site 342610010583 phosphorylation site [posttranslational modification] 342610010584 intermolecular recognition site; other site 342610010585 dimerization interface [polypeptide binding]; other site 342610010586 Response regulator receiver domain; Region: Response_reg; pfam00072 342610010587 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 342610010588 active site 342610010589 phosphorylation site [posttranslational modification] 342610010590 intermolecular recognition site; other site 342610010591 dimerization interface [polypeptide binding]; other site 342610010592 Protein of unknown function (DUF3081); Region: DUF3081; pfam11280 342610010593 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 342610010594 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 342610010595 ChaB; Region: ChaB; cl01887 342610010596 Protein of unknown function (DUF808); Region: DUF808; cl01002 342610010597 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 342610010598 putative active site [active] 342610010599 putative catalytic site [active] 342610010600 NodB motif; other site 342610010601 Zn binding site [ion binding]; other site 342610010602 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 342610010603 Sulfatase; Region: Sulfatase; cl10460 342610010604 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 342610010605 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 342610010606 active site residue [active] 342610010607 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 342610010608 GSH binding site [chemical binding]; other site 342610010609 catalytic residues [active] 342610010610 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; cd00557 342610010611 SecA binding site; other site 342610010612 Preprotein binding site; other site 342610010613 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 342610010614 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610010615 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 342610010616 hypothetical protein; Provisional; Region: PRK11383 342610010617 yiaA/B two helix domain; Region: YiaAB; cl01759 342610010618 yiaA/B two helix domain; Region: YiaAB; cl01759 342610010619 Uncharacterized protein conserved in bacteria (DUF2145); Region: DUF2145; pfam09916 342610010620 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 342610010621 Protein of unknown function (DUF328); Region: DUF328; cl01143 342610010622 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 342610010623 transaldolase-like protein; Provisional; Region: PTZ00411 342610010624 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 342610010625 active site 342610010626 dimer interface [polypeptide binding]; other site 342610010627 catalytic residue [active] 342610010628 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 342610010629 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 342610010630 active site 342610010631 dimer interface [polypeptide binding]; other site 342610010632 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 342610010633 dimer interface [polypeptide binding]; other site 342610010634 active site 342610010635 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 342610010636 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 342610010637 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 342610010638 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 342610010639 transcriptional regulator SlyA; Provisional; Region: PRK03573 342610010640 Helix-turn-helix domains; Region: HTH; cl00088 342610010641 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 342610010642 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 342610010643 N-terminal plug; other site 342610010644 ligand-binding site [chemical binding]; other site 342610010645 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 342610010646 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 342610010647 pyridoxal 5'-phosphate binding site [chemical binding]; other site 342610010648 homodimer interface [polypeptide binding]; other site 342610010649 catalytic residue [active] 342610010650 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 342610010651 active site 342610010652 phosphorylation site [posttranslational modification] 342610010653 intermolecular recognition site; other site 342610010654 dimerization interface [polypeptide binding]; other site 342610010655 DNA polymerase II; Reviewed; Region: PRK05762 342610010656 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 342610010657 active site 342610010658 catalytic site [active] 342610010659 substrate binding site [chemical binding]; other site 342610010660 DNA polymerase type-II subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as...; Region: POLBc_Pol_II; cd05537 342610010661 active site 342610010662 metal-binding site 342610010663 Tetratricopeptide repeat; Region: TPR_12; pfam13424 342610010664 Tetratricopeptide repeat; Region: TPR_12; pfam13424 342610010665 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610010666 metal binding site [ion binding]; metal-binding site 342610010667 active site 342610010668 I-site; other site 342610010669 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 342610010670 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 342610010671 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610010672 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 342610010673 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 342610010674 GTP/Mg2+ binding site [chemical binding]; other site 342610010675 G4 box; other site 342610010676 G5 box; other site 342610010677 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610010678 G1 box; other site 342610010679 Switch I region; other site 342610010680 G2 box; other site 342610010681 G3 box; other site 342610010682 Switch II region; other site 342610010683 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 342610010684 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 342610010685 N-terminal plug; other site 342610010686 ligand-binding site [chemical binding]; other site 342610010687 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 342610010688 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 342610010689 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610010690 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610010691 Alginate lyase; Region: Alginate_lyase2; pfam08787 342610010692 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 342610010693 classical (c) SDRs; Region: SDR_c; cd05233 342610010694 NAD(P) binding site [chemical binding]; other site 342610010695 active site 342610010696 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 342610010697 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 342610010698 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 342610010699 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 342610010700 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 342610010701 ATP-binding site [chemical binding]; other site 342610010702 Gluconate-6-phosphate binding site [chemical binding]; other site 342610010703 Alginate lyase; Region: Alginate_lyase2; pfam08787 342610010704 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 342610010705 Phosphomannose isomerase type I; Region: PMI_typeI; cl15429 342610010706 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 342610010707 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 342610010708 mannonate dehydratase; Provisional; Region: PRK03906 342610010709 mannonate dehydratase; Region: uxuA; TIGR00695 342610010710 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 342610010711 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 342610010712 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 342610010713 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 342610010714 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610010715 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610010716 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 342610010717 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 342610010718 Cation efflux family; Region: Cation_efflux; cl00316 342610010719 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 342610010720 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 342610010721 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 342610010722 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 342610010723 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 342610010724 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 342610010725 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 342610010726 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 342610010727 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 342610010728 substrate binding site [chemical binding]; other site 342610010729 ATP binding site [chemical binding]; other site 342610010730 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 342610010731 D-galactonate transporter; Region: 2A0114; TIGR00893 342610010732 putative substrate translocation pore; other site 342610010733 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 342610010734 Periplasmic copper-binding protein (NosD); Region: NosD; pfam05048 342610010735 Transcriptional regulators [Transcription]; Region: FadR; COG2186 342610010736 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 342610010737 DNA-binding site [nucleotide binding]; DNA binding site 342610010738 FCD domain; Region: FCD; cl11656 342610010739 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 342610010740 classical (c) SDRs; Region: SDR_c; cd05233 342610010741 NAD(P) binding site [chemical binding]; other site 342610010742 active site 342610010743 FAD binding domain; Region: FAD_binding_3; pfam01494 342610010744 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610010745 DinB superfamily; Region: DinB_2; pfam12867 342610010746 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 342610010747 Methyltransferase domain; Region: Methyltransf_31; pfam13847 342610010748 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 342610010749 S-adenosylmethionine binding site [chemical binding]; other site 342610010750 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 342610010751 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 342610010752 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 342610010753 ATP-grasp domain; Region: ATP-grasp_4; cl03087 342610010754 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 342610010755 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 342610010756 Response regulator receiver domain; Region: Response_reg; pfam00072 342610010757 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 342610010758 active site 342610010759 phosphorylation site [posttranslational modification] 342610010760 intermolecular recognition site; other site 342610010761 dimerization interface [polypeptide binding]; other site 342610010762 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610010763 metal binding site [ion binding]; metal-binding site 342610010764 active site 342610010765 I-site; other site 342610010766 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 342610010767 Helix-turn-helix domains; Region: HTH; cl00088 342610010768 Mechanosensitive ion channel; Region: MS_channel; pfam00924 342610010769 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 342610010770 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 342610010771 dimer interface [polypeptide binding]; other site 342610010772 active site 342610010773 metal binding site [ion binding]; metal-binding site 342610010774 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 342610010775 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610010776 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 342610010777 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610010778 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 342610010779 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 342610010780 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 342610010781 Ligand binding site; other site 342610010782 Putative Catalytic site; other site 342610010783 DXD motif; other site 342610010784 Chemotaxis phosphatase CheX; Region: CheX; cl15816 342610010785 Response regulator receiver domain; Region: Response_reg; pfam00072 342610010786 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 342610010787 active site 342610010788 phosphorylation site [posttranslational modification] 342610010789 intermolecular recognition site; other site 342610010790 dimerization interface [polypeptide binding]; other site 342610010791 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 342610010792 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 342610010793 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 342610010794 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 342610010795 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 342610010796 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 342610010797 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 342610010798 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 342610010799 putative S-transferase; Provisional; Region: PRK11752 342610010800 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 342610010801 C-terminal domain interface [polypeptide binding]; other site 342610010802 GSH binding site (G-site) [chemical binding]; other site 342610010803 dimer interface [polypeptide binding]; other site 342610010804 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 342610010805 dimer interface [polypeptide binding]; other site 342610010806 N-terminal domain interface [polypeptide binding]; other site 342610010807 active site 342610010808 SapC; Region: SapC; pfam07277 342610010809 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 342610010810 Sodium:solute symporter family; Region: SSF; cl00456 342610010811 putative transporter; Provisional; Region: PRK10484 342610010812 SapC; Region: SapC; pfam07277 342610010813 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610010814 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 342610010815 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 342610010816 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610010817 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610010818 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 342610010819 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-glucosyltransferase; Region: GH31; cl11402 342610010820 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 342610010821 active site 342610010822 dimer interface [polypeptide binding]; other site 342610010823 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 342610010824 Platelet-activating factor acetylhydrolase, isoform II; Region: PAF-AH_p_II; pfam03403 342610010825 Predicted proline hydroxylase [Posttranslational modification, protein turnover, chaperones]; Region: EGL-9; COG3751 342610010826 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 342610010827 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 342610010828 active site 342610010829 catalytic site [active] 342610010830 substrate binding site [chemical binding]; other site 342610010831 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 342610010832 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 342610010833 Putative lipoprotein [General function prediction only]; Region: LppC; COG3107 342610010834 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 342610010835 putative ligand binding site [chemical binding]; other site 342610010836 Restriction endonuclease; Region: Mrr_cat; cl00516 342610010837 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 342610010838 dimer interface [polypeptide binding]; other site 342610010839 active site 342610010840 BON domain; Region: BON; cl02771 342610010841 BON domain; Region: BON; cl02771 342610010842 Stringent starvation protein B; Region: SspB; cl01120 342610010843 stringent starvation protein A; Provisional; Region: sspA; PRK09481 342610010844 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 342610010845 C-terminal domain interface [polypeptide binding]; other site 342610010846 putative GSH binding site (G-site) [chemical binding]; other site 342610010847 dimer interface [polypeptide binding]; other site 342610010848 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 342610010849 dimer interface [polypeptide binding]; other site 342610010850 N-terminal domain interface [polypeptide binding]; other site 342610010851 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 342610010852 cytochrome b; Provisional; Region: CYTB; MTH00145 342610010853 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 342610010854 Qi binding site; other site 342610010855 intrachain domain interface; other site 342610010856 interchain domain interface [polypeptide binding]; other site 342610010857 heme bH binding site [chemical binding]; other site 342610010858 heme bL binding site [chemical binding]; other site 342610010859 Qo binding site; other site 342610010860 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cd00290 342610010861 interchain domain interface [polypeptide binding]; other site 342610010862 intrachain domain interface; other site 342610010863 Qi binding site; other site 342610010864 Qo binding site; other site 342610010865 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 342610010866 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 342610010867 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 342610010868 [2Fe-2S] cluster binding site [ion binding]; other site 342610010869 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 342610010870 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 342610010871 23S rRNA interface [nucleotide binding]; other site 342610010872 L3 interface [polypeptide binding]; other site 342610010873 FOG: CBS domain [General function prediction only]; Region: COG0517 342610010874 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_27; cd04640 342610010875 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 342610010876 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 342610010877 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 342610010878 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 342610010879 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 342610010880 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 342610010881 synthetase active site [active] 342610010882 NTP binding site [chemical binding]; other site 342610010883 metal binding site [ion binding]; metal-binding site 342610010884 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 342610010885 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 342610010886 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 342610010887 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 342610010888 active site 342610010889 hydrophilic channel; other site 342610010890 dimerization interface [polypeptide binding]; other site 342610010891 catalytic residues [active] 342610010892 active site lid [active] 342610010893 Recombination protein O N terminal; Region: RecO_N; cl15812 342610010894 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 342610010895 Recombination protein O C terminal; Region: RecO_C; pfam02565 342610010896 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 342610010897 DHH family; Region: DHH; pfam01368 342610010898 DHHA1 domain; Region: DHHA1; pfam02272 342610010899 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 342610010900 dimerization domain [polypeptide binding]; other site 342610010901 dimer interface [polypeptide binding]; other site 342610010902 catalytic residues [active] 342610010903 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 342610010904 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 342610010905 active site 342610010906 Int/Topo IB signature motif; other site 342610010907 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 342610010908 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 342610010909 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610010910 Walker A motif; other site 342610010911 ATP binding site [chemical binding]; other site 342610010912 Walker B motif; other site 342610010913 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 342610010914 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 342610010915 Walker A motif; other site 342610010916 ATP binding site [chemical binding]; other site 342610010917 Walker B motif; other site 342610010918 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 342610010919 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 342610010920 catalytic residue [active] 342610010921 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 342610010922 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610010923 YGGT family; Region: YGGT; cl00508 342610010924 YGGT family; Region: YGGT; cl00508 342610010925 Domain of unknown function (DUF4426); Region: DUF4426; pfam14467 342610010926 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 342610010927 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 342610010928 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 342610010929 dimer interface [polypeptide binding]; other site 342610010930 phosphorylation site [posttranslational modification] 342610010931 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 342610010932 ATP binding site [chemical binding]; other site 342610010933 Mg2+ binding site [ion binding]; other site 342610010934 G-X-G motif; other site 342610010935 Response regulator receiver domain; Region: Response_reg; pfam00072 342610010936 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 342610010937 active site 342610010938 phosphorylation site [posttranslational modification] 342610010939 intermolecular recognition site; other site 342610010940 dimerization interface [polypeptide binding]; other site 342610010941 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 342610010942 putative dimerization interface [polypeptide binding]; other site 342610010943 putative ligand binding site [chemical binding]; other site 342610010944 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 342610010945 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610010946 D-xylulose kinases, Escherichia coli xylulokinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 342610010947 xylulokinase; Provisional; Region: PRK15027 342610010948 N- and C-terminal domain interface [polypeptide binding]; other site 342610010949 active site 342610010950 catalytic site [active] 342610010951 metal binding site [ion binding]; metal-binding site 342610010952 xylulose binding site [chemical binding]; other site 342610010953 putative ATP binding site [chemical binding]; other site 342610010954 homodimer interface [polypeptide binding]; other site 342610010955 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 342610010956 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 342610010957 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 342610010958 putative substrate translocation pore; other site 342610010959 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 342610010960 Glycosyl hydrolase family 43, includes arabinoxylan arabinofuranohydrolase, beta-xylosidase, endo-1,4-beta-xylanase, alpha-L-arabinofuranosidase; Region: GH43_AXH_like; cd08990 342610010961 substrate binding site [chemical binding]; other site 342610010962 active site 342610010963 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 342610010964 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 342610010965 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 342610010966 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 342610010967 Fibronectin type III-like domain; Region: Fn3-like; cl15273 342610010968 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 342610010969 putative catalytic site [active] 342610010970 putative metal binding site [ion binding]; other site 342610010971 putative phosphate binding site [ion binding]; other site 342610010972 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 342610010973 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 342610010974 putative active site [active] 342610010975 putative active site [active] 342610010976 catalytic site [active] 342610010977 catalytic site [active] 342610010978 Catalytic domain, repeat 2, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_2; cd09143 342610010979 PLD-like domain; Region: PLDc_2; pfam13091 342610010980 putative active site [active] 342610010981 catalytic site [active] 342610010982 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 342610010983 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 342610010984 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 342610010985 DNA-binding site [nucleotide binding]; DNA binding site 342610010986 RNA-binding motif; other site 342610010987 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 342610010988 dimer interface [polypeptide binding]; other site 342610010989 catalytic triad [active] 342610010990 peroxidatic and resolving cysteines [active] 342610010991 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 342610010992 folate binding site [chemical binding]; other site 342610010993 NADP+ binding site [chemical binding]; other site 342610010994 GTPase CgtA; Reviewed; Region: obgE; PRK12298 342610010995 GTP1/OBG; Region: GTP1_OBG; pfam01018 342610010996 Obg GTPase; Region: Obg; cd01898 342610010997 G1 box; other site 342610010998 GTP/Mg2+ binding site [chemical binding]; other site 342610010999 Switch I region; other site 342610011000 G2 box; other site 342610011001 G3 box; other site 342610011002 Switch II region; other site 342610011003 G4 box; other site 342610011004 G5 box; other site 342610011005 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 342610011006 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 342610011007 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 342610011008 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 342610011009 substrate binding pocket [chemical binding]; other site 342610011010 chain length determination region; other site 342610011011 substrate-Mg2+ binding site; other site 342610011012 catalytic residues [active] 342610011013 aspartate-rich region 1; other site 342610011014 active site lid residues [active] 342610011015 aspartate-rich region 2; other site 342610011016 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 342610011017 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 342610011018 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 342610011019 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 342610011020 DNA binding residues [nucleotide binding] 342610011021 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 342610011022 MOSC domain; Region: MOSC; pfam03473 342610011023 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 342610011024 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 342610011025 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 342610011026 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 342610011027 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 342610011028 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 342610011029 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 342610011030 putative active site [active] 342610011031 heme pocket [chemical binding]; other site 342610011032 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 342610011033 dimer interface [polypeptide binding]; other site 342610011034 phosphorylation site [posttranslational modification] 342610011035 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 342610011036 ATP binding site [chemical binding]; other site 342610011037 Mg2+ binding site [ion binding]; other site 342610011038 G-X-G motif; other site 342610011039 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 342610011040 active site 342610011041 phosphorylation site [posttranslational modification] 342610011042 intermolecular recognition site; other site 342610011043 dimerization interface [polypeptide binding]; other site 342610011044 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 342610011045 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 342610011046 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 342610011047 active site 342610011048 dimer interface [polypeptide binding]; other site 342610011049 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 342610011050 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 342610011051 active site 342610011052 FMN binding site [chemical binding]; other site 342610011053 substrate binding site [chemical binding]; other site 342610011054 3Fe-4S cluster binding site [ion binding]; other site 342610011055 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 342610011056 domain interface; other site 342610011057 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 342610011058 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610011059 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 342610011060 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH6; cd08194 342610011061 putative active site [active] 342610011062 metal binding site [ion binding]; metal-binding site 342610011063 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 342610011064 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 342610011065 catalytic residues [active] 342610011066 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 342610011067 oligomerisation interface [polypeptide binding]; other site 342610011068 mobile loop; other site 342610011069 roof hairpin; other site 342610011070 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 342610011071 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 342610011072 ring oligomerisation interface [polypeptide binding]; other site 342610011073 ATP/Mg binding site [chemical binding]; other site 342610011074 stacking interactions; other site 342610011075 hinge regions; other site 342610011076 Protein of unknown function (DUF3644); Region: DUF3644; pfam12358 342610011077 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 342610011078 Transposase; Region: DEDD_Tnp_IS110; pfam01548 342610011079 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 342610011080 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 342610011081 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 342610011082 putative NAD(P) binding site [chemical binding]; other site 342610011083 dimer interface [polypeptide binding]; other site 342610011084 NADP+-dependent p-hydroxybenzaldehyde dehydrogenase-like; Region: ALDH_HBenzADH; cd07151 342610011085 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 342610011086 NAD(P) binding site [chemical binding]; other site 342610011087 catalytic residues [active] 342610011088 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 342610011089 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 342610011090 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; cl01408 342610011091 Benzyl alcohol dehydrogenase; Region: benzyl_alcohol_DH; cd08278 342610011092 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 342610011093 catalytic Zn binding site [ion binding]; other site 342610011094 NAD binding site [chemical binding]; other site 342610011095 structural Zn binding site [ion binding]; other site 342610011096 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 342610011097 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 342610011098 non-specific DNA binding site [nucleotide binding]; other site 342610011099 salt bridge; other site 342610011100 sequence-specific DNA binding site [nucleotide binding]; other site 342610011101 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 342610011102 DNA-binding transcriptional activator CadC; Provisional; Region: PRK10153 342610011103 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 342610011104 DNA binding site [nucleotide binding] 342610011105 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 342610011106 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 342610011107 Helix-turn-helix domains; Region: HTH; cl00088 342610011108 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 342610011109 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 342610011110 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 342610011111 Walker A/P-loop; other site 342610011112 ATP binding site [chemical binding]; other site 342610011113 Q-loop/lid; other site 342610011114 ABC transporter signature motif; other site 342610011115 Walker B; other site 342610011116 D-loop; other site 342610011117 H-loop/switch region; other site 342610011118 ABC-2 type transporter; Region: ABC2_membrane; cl11417 342610011119 Domain of unknown function (DUF3526); Region: DUF3526; pfam12040 342610011120 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 342610011121 Domain of unknown function (DUF3526); Region: DUF3526; pfam12040 342610011122 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 342610011123 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 342610011124 N-terminal plug; other site 342610011125 ligand-binding site [chemical binding]; other site 342610011126 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 342610011127 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 342610011128 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 342610011129 active site 342610011130 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 342610011131 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 342610011132 conserved cys residue [active] 342610011133 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610011134 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610011135 3-oxoacyl-acyl carrier protein synthase; Provisional; Region: PTZ00050 342610011136 'elongating' condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type I and II and polyketide synthases.They are characterized by the utlization of acyl carrier protein (ACP) thioesters as...; Region: elong_cond_enzymes; cd00828 342610011137 active site 342610011138 PAF_acetylhydrolase (PAF-AH)_like subfamily of SGNH-hydrolases. Platelet-activating factor (PAF) and PAF-AH are key players in inflammation and in atherosclerosis. PAF-AH is a calcium independent phospholipase A2 which exhibits strong substrate...; Region: PAF_acetylesterase_like; cd01820 342610011139 active site 342610011140 catalytic triad [active] 342610011141 oxyanion hole [active] 342610011142 specificity pocket; other site 342610011143 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 342610011144 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 342610011145 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 342610011146 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 342610011147 active site 342610011148 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 342610011149 DNA-binding site [nucleotide binding]; DNA binding site 342610011150 RNA-binding motif; other site 342610011151 ribonuclease R; Region: RNase_R; TIGR02063 342610011152 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 342610011153 RNB domain; Region: RNB; pfam00773 342610011154 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 342610011155 RNA binding site [nucleotide binding]; other site 342610011156 Predicted membrane protein (DUF2238); Region: DUF2238; cl01464 342610011157 Protein of unknown function (DUF465); Region: DUF465; cl01070 342610011158 LEA14-like dessication related protein [Defense mechanisms]; Region: COG5608 342610011159 Late embryogenesis abundant protein; Region: LEA_2; cl12118 342610011160 Cytochrome b562; Region: Cytochrom_B562; cl01546 342610011161 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 342610011162 succinate CoA transferases; Region: YgfH_subfam; TIGR03458 342610011163 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 342610011164 deoxyguanosinetriphosphate triphosphohydrolase; Provisional; Region: dgt; PRK04926 342610011165 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 342610011166 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 342610011167 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610011168 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610011169 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610011170 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 342610011171 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 342610011172 binding surface 342610011173 TPR motif; other site 342610011174 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 342610011175 binding surface 342610011176 TPR motif; other site 342610011177 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 342610011178 binding surface 342610011179 TPR motif; other site 342610011180 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 342610011181 binding surface 342610011182 TPR motif; other site 342610011183 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 342610011184 binding surface 342610011185 TPR motif; other site 342610011186 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 342610011187 binding surface 342610011188 TPR motif; other site 342610011189 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 342610011190 binding surface 342610011191 TPR motif; other site 342610011192 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 342610011193 TPR motif; other site 342610011194 binding surface 342610011195 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 342610011196 binding surface 342610011197 TPR motif; other site 342610011198 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 342610011199 binding surface 342610011200 TPR motif; other site 342610011201 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610011202 metal binding site [ion binding]; metal-binding site 342610011203 active site 342610011204 I-site; other site 342610011205 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 342610011206 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 342610011207 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 342610011208 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 342610011209 Protein export membrane protein; Region: SecD_SecF; cl14618 342610011210 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 342610011211 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 342610011212 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 342610011213 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 342610011214 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 342610011215 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 342610011216 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610011217 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610011218 Phospholipid methyltransferase; Region: PEMT; cl00763 342610011219 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 342610011220 Protein of unknown function (DUF3015); Region: DUF3015; pfam11220 342610011221 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 342610011222 active site 342610011223 catalytic residues [active] 342610011224 DNA binding site [nucleotide binding] 342610011225 Int/Topo IB signature motif; other site 342610011226 FAD dependent oxidoreductase; Region: DAO; pfam01266 342610011227 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610011228 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 342610011229 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 342610011230 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 342610011231 AMP-binding enzyme; Region: AMP-binding; cl15778 342610011232 enoyl-CoA hydratase; Provisional; Region: PRK06688 342610011233 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 342610011234 substrate binding site [chemical binding]; other site 342610011235 oxyanion hole (OAH) forming residues; other site 342610011236 trimer interface [polypeptide binding]; other site 342610011237 Helix-turn-helix domains; Region: HTH; cl00088 342610011238 5-oxoprolinase; Region: PLN02666 342610011239 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 342610011240 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 342610011241 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 342610011242 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 342610011243 Protein of unknown function (DUF3010); Region: DUF3010; pfam11215 342610011244 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610011245 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 342610011246 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610011247 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610011248 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 342610011249 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 342610011250 putative substrate translocation pore; other site 342610011251 Alpha amylase catalytic domain found in Amylosucrase; Region: AmyAc_Amylosucrase; cd11324 342610011252 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 342610011253 active site 342610011254 catalytic site [active] 342610011255 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 342610011256 Transcriptional regulators [Transcription]; Region: PurR; COG1609 342610011257 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 342610011258 DNA binding site [nucleotide binding] 342610011259 domain linker motif; other site 342610011260 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_3; cd06279 342610011261 putative dimerization interface [polypeptide binding]; other site 342610011262 putative ligand binding site [chemical binding]; other site 342610011263 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 342610011264 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 342610011265 putative substrate translocation pore; other site 342610011266 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 342610011267 Glycosyl hydrolases family 32; Region: Glyco_32; smart00640 342610011268 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 342610011269 substrate binding [chemical binding]; other site 342610011270 active site 342610011271 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 342610011272 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 342610011273 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 342610011274 C-terminal domain interface [polypeptide binding]; other site 342610011275 GSH binding site (G-site) [chemical binding]; other site 342610011276 dimer interface [polypeptide binding]; other site 342610011277 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 342610011278 N-terminal domain interface [polypeptide binding]; other site 342610011279 dimer interface [polypeptide binding]; other site 342610011280 substrate binding pocket (H-site) [chemical binding]; other site 342610011281 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 342610011282 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 342610011283 putative active site [active] 342610011284 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610011285 ATP-dependent helicase HepA; Validated; Region: PRK04914 342610011286 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 342610011287 ATP binding site [chemical binding]; other site 342610011288 putative Mg++ binding site [ion binding]; other site 342610011289 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 342610011290 nucleotide binding region [chemical binding]; other site 342610011291 ATP-binding site [chemical binding]; other site 342610011292 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 342610011293 active site 342610011294 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 342610011295 Hint module; Region: Hint; pfam01079 342610011296 muropeptide transporter; Validated; Region: ampG; PRK11010 342610011297 AmpG-related permease; Region: 2A0125; TIGR00901 342610011298 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610011299 metal binding site [ion binding]; metal-binding site 342610011300 active site 342610011301 I-site; other site 342610011302 Response regulator receiver domain; Region: Response_reg; pfam00072 342610011303 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 342610011304 active site 342610011305 phosphorylation site [posttranslational modification] 342610011306 intermolecular recognition site; other site 342610011307 dimerization interface [polypeptide binding]; other site 342610011308 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 342610011309 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 342610011310 dimerization interface [polypeptide binding]; other site 342610011311 active site 342610011312 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 342610011313 CAAX protease self-immunity; Region: Abi; cl00558 342610011314 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 342610011315 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 342610011316 dimerization interface [polypeptide binding]; other site 342610011317 DPS ferroxidase diiron center [ion binding]; other site 342610011318 ion pore; other site 342610011319 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 342610011320 RhlG and related beta-ketoacyl reductases, classical (c) SDRs; Region: RhlG_SDR_c; cd08942 342610011321 NADP binding site [chemical binding]; other site 342610011322 active site 342610011323 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 342610011324 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 342610011325 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional; Region: PRK11061 342610011326 GAF domain; Region: GAF; cl15785 342610011327 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 342610011328 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 342610011329 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 342610011330 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 342610011331 putative active site [active] 342610011332 Ap4A binding site [chemical binding]; other site 342610011333 nudix motif; other site 342610011334 putative metal binding site [ion binding]; other site 342610011335 YhhN-like protein; Region: YhhN; cl01505 342610011336 MutH is a 28kD endonuclease involved in methyl-directed DNA mismatch repair in gram negative bacteria. MutH is both sequence-specific and methylation-specific, introducing a nick in the unmethylated strand of a hemi-methylated d(GATC) DNA duplex. MutH...; Region: MutH_Sau3AI; cd00583 342610011337 putative DNA-binding cleft [nucleotide binding]; other site 342610011338 putative DNA clevage site; other site 342610011339 molecular lever; other site 342610011340 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 342610011341 Aldehyde dehydrogenase family 21A1-like; Region: ALDH_F21_RNP123; cd07147 342610011342 NAD(P) binding site [chemical binding]; other site 342610011343 catalytic residues [active] 342610011344 acetolactate synthase; Reviewed; Region: PRK08322 342610011345 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 342610011346 PYR/PP interface [polypeptide binding]; other site 342610011347 dimer interface [polypeptide binding]; other site 342610011348 TPP binding site [chemical binding]; other site 342610011349 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 342610011350 Thiamine pyrophosphate (TPP) family, Acetolactate synthase (ALS) subfamily, TPP-binding module; composed of proteins similar to Klebsiella pneumoniae ALS, a catabolic enzyme required for butanediol fermentation. ALS catalyzes the conversion of 2...; Region: TPP_ALS; cd02010 342610011351 TPP-binding site [chemical binding]; other site 342610011352 dimer interface [polypeptide binding]; other site 342610011353 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 342610011354 putative active site [active] 342610011355 putative metal binding residues [ion binding]; other site 342610011356 signature motif; other site 342610011357 putative triphosphate binding site [ion binding]; other site 342610011358 SH3 domain-containing protein; Provisional; Region: PRK10884 342610011359 Bacterial SH3 domain; Region: SH3_3; cl02551 342610011360 Septum formation initiator; Region: DivIC; cl11433 342610011361 LysE type translocator; Region: LysE; cl00565 342610011362 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 342610011363 TIGR03545 family protein; Region: TIGR03545 342610011364 Septum formation initiator; Region: DivIC; cl11433 342610011365 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 342610011366 substrate binding site; other site 342610011367 dimer interface; other site 342610011368 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 342610011369 homotrimer interaction site [polypeptide binding]; other site 342610011370 zinc binding site [ion binding]; other site 342610011371 CDP-binding sites; other site 342610011372 tRNA pseudouridine synthase D (TruD); Region: TruD; pfam01142 342610011373 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 342610011374 Permutation of conserved domain; other site 342610011375 active site 342610011376 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 342610011377 Survival protein SurE; Region: SurE; cl00448 342610011378 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 342610011379 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 342610011380 S-adenosylmethionine binding site [chemical binding]; other site 342610011381 Domain of unknown function (DUF368); Region: DUF368; cl00893 342610011382 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 342610011383 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 342610011384 putative peptidoglycan binding site; other site 342610011385 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 342610011386 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 342610011387 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 342610011388 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 342610011389 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 342610011390 DNA binding residues [nucleotide binding] 342610011391 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 342610011392 SWIM/SEC-C metal-binding motif protein, PBPRA1643 family; Region: SWIM_PBPRA1643; TIGR04102 342610011393 putative hydrolase; Validated; Region: PRK09248 342610011394 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 342610011395 nucleoside/Zn binding site; other site 342610011396 dimer interface [polypeptide binding]; other site 342610011397 catalytic motif [active] 342610011398 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 342610011399 non-specific DNA binding site [nucleotide binding]; other site 342610011400 salt bridge; other site 342610011401 sequence-specific DNA binding site [nucleotide binding]; other site 342610011402 Predicted amidohydrolase [General function prediction only]; Region: COG0388 342610011403 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 342610011404 putative active site [active] 342610011405 catalytic triad [active] 342610011406 putative dimer interface [polypeptide binding]; other site 342610011407 arginine decarboxylase; Provisional; Region: PRK05354 342610011408 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 342610011409 dimer interface [polypeptide binding]; other site 342610011410 active site 342610011411 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 342610011412 catalytic residues [active] 342610011413 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 342610011414 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 342610011415 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 342610011416 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 342610011417 AlkA N-terminal domain; Region: AlkA_N; cl05528 342610011418 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 342610011419 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 342610011420 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 342610011421 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 342610011422 DNA binding site [nucleotide binding] 342610011423 active site 342610011424 EamA-like transporter family; Region: EamA; cl01037 342610011425 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 342610011426 EamA-like transporter family; Region: EamA; cl01037 342610011427 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610011428 metal binding site [ion binding]; metal-binding site 342610011429 active site 342610011430 I-site; other site 342610011431 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 342610011432 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 342610011433 Substrate binding site; other site 342610011434 Mg++ binding site; other site 342610011435 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 342610011436 active site 342610011437 substrate binding site [chemical binding]; other site 342610011438 CoA binding site [chemical binding]; other site 342610011439 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 342610011440 Helix-turn-helix domains; Region: HTH; cl00088 342610011441 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 342610011442 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 342610011443 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 342610011444 glutaminase active site [active] 342610011445 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 342610011446 dimer interface [polypeptide binding]; other site 342610011447 active site 342610011448 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 342610011449 dimer interface [polypeptide binding]; other site 342610011450 active site 342610011451 Phosphate-selective porin O and P; Region: Porin_O_P; cl01524 342610011452 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 342610011453 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 342610011454 active site 342610011455 catalytic tetrad [active] 342610011456 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 342610011457 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610011458 Subunit B of the Class III extradiol dioxygenase, Protocatechuate 4,5-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of protocatechuate; Region: PCA_45_Dioxygenase_B; cd07364 342610011459 active site 342610011460 Fe(II) binding site [ion binding]; other site 342610011461 dimer interface [polypeptide binding]; other site 342610011462 tetramer interface [polypeptide binding]; other site 342610011463 The A subunit of Protocatechuate 4,5-dioxygenase (LigAB) is the smaller, non-catalytic subunit; Region: PCA_45_Doxase_A; cd07924 342610011464 tetramer interface [polypeptide binding]; other site 342610011465 dimer interface [polypeptide binding]; other site 342610011466 active site 342610011467 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 342610011468 2-pyrone-4,6-dicarboxylic acid (PDC) hydrolase hydrolyzes PDC to yield 4-oxalomesaconic acid (OMA) or its tautomer, 4-carboxy-2-hydroxymuconic acid (CHM). This reaction is part of the protocatechuate (PCA) 4,5-cleavage pathway. PCA is one of the most...; Region: PDC_hydrolase; cd01311 342610011469 active site 342610011470 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 342610011471 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 342610011472 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 342610011473 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 342610011474 Helix-turn-helix domains; Region: HTH; cl00088 342610011475 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 342610011476 Helix-turn-helix domains; Region: HTH; cl00088 342610011477 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 342610011478 dimerization interface [polypeptide binding]; other site 342610011479 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 342610011480 Cupin domain; Region: Cupin_2; cl09118 342610011481 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610011482 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610011483 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 342610011484 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610011485 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 342610011486 Pseudomonas putida vanillin dehydrogenase-like; Region: ALDH_VaniDH_like; cd07150 342610011487 NAD(P) binding site [chemical binding]; other site 342610011488 catalytic residues [active] 342610011489 Helix-turn-helix domains; Region: HTH; cl00088 342610011490 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 342610011491 Helix-turn-helix domains; Region: HTH; cl00088 342610011492 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 342610011493 putative dimerization interface [polypeptide binding]; other site 342610011494 Activator of aromatic catabolism; Region: XylR_N; pfam06505 342610011495 Heme NO binding; Region: HNOB; cl15268 342610011496 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 342610011497 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 342610011498 Walker A motif; other site 342610011499 ATP binding site [chemical binding]; other site 342610011500 Walker B motif; other site 342610011501 arginine finger; other site 342610011502 Helix-turn-helix domains; Region: HTH; cl00088 342610011503 Benzyl alcohol dehydrogenase; Region: benzyl_alcohol_DH; cd08278 342610011504 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 342610011505 catalytic Zn binding site [ion binding]; other site 342610011506 NAD binding site [chemical binding]; other site 342610011507 structural Zn binding site [ion binding]; other site 342610011508 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 342610011509 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610011510 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 342610011511 N-terminal plug; other site 342610011512 ligand-binding site [chemical binding]; other site 342610011513 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 342610011514 Sulfatase; Region: Sulfatase; cl10460 342610011515 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 342610011516 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 342610011517 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 342610011518 N-terminal plug; other site 342610011519 ligand-binding site [chemical binding]; other site 342610011520 Helix-turn-helix domains; Region: HTH; cl00088 342610011521 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 342610011522 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 342610011523 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 342610011524 FAD binding domain; Region: FAD_binding_4; pfam01565 342610011525 Cytochrome c; Region: Cytochrom_C; cl11414 342610011526 Cupin domain; Region: Cupin_2; cl09118 342610011527 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 342610011528 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 342610011529 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 342610011530 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 342610011531 active site 342610011532 Protein of unknown function (DUF445); Region: DUF445; pfam04286 342610011533 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 342610011534 PAS domain; Region: PAS_9; pfam13426 342610011535 putative active site [active] 342610011536 heme pocket [chemical binding]; other site 342610011537 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610011538 metal binding site [ion binding]; metal-binding site 342610011539 active site 342610011540 I-site; other site 342610011541 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 342610011542 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 342610011543 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 342610011544 dimer interface [polypeptide binding]; other site 342610011545 phosphorylation site [posttranslational modification] 342610011546 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 342610011547 ATP binding site [chemical binding]; other site 342610011548 Mg2+ binding site [ion binding]; other site 342610011549 G-X-G motif; other site 342610011550 Response regulator receiver domain; Region: Response_reg; pfam00072 342610011551 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 342610011552 active site 342610011553 phosphorylation site [posttranslational modification] 342610011554 intermolecular recognition site; other site 342610011555 dimerization interface [polypeptide binding]; other site 342610011556 Response regulator receiver domain; Region: Response_reg; pfam00072 342610011557 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 342610011558 active site 342610011559 phosphorylation site [posttranslational modification] 342610011560 intermolecular recognition site; other site 342610011561 dimerization interface [polypeptide binding]; other site 342610011562 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 342610011563 Helix-turn-helix domains; Region: HTH; cl00088 342610011564 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 342610011565 putative dimerization interface [polypeptide binding]; other site 342610011566 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 342610011567 Protein of unknown function DUF84; Region: NTPase_I-T; cl00866 342610011568 proteobacterial dedicated sortase system histidine kinase; Region: marine_sort_HK; TIGR03785 342610011569 DOMON-like type 9 carbohydrate binding module at the N-terminus of bacterial sensor histidine kinases; Region: CBM9_like_HisKa; cd09622 342610011570 putative ligand binding site [chemical binding]; other site 342610011571 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 342610011572 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 342610011573 dimer interface [polypeptide binding]; other site 342610011574 phosphorylation site [posttranslational modification] 342610011575 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 342610011576 ATP binding site [chemical binding]; other site 342610011577 Mg2+ binding site [ion binding]; other site 342610011578 G-X-G motif; other site 342610011579 proteobacterial dedicated sortase system response regulator; Region: marine_sort_RR; TIGR03787 342610011580 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 342610011581 active site 342610011582 phosphorylation site [posttranslational modification] 342610011583 intermolecular recognition site; other site 342610011584 dimerization interface [polypeptide binding]; other site 342610011585 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 342610011586 DNA binding site [nucleotide binding] 342610011587 proteobacterial sortase system OmpA family protein; Region: pdsO; TIGR03789 342610011588 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 342610011589 ligand binding site [chemical binding]; other site 342610011590 Vault protein inter-alpha-trypsin domain; Region: VIT; cl02699 342610011591 marine proteobacterial sortase target protein; Region: marine_srt_targ; TIGR03788 342610011592 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 342610011593 metal ion-dependent adhesion site (MIDAS); other site 342610011594 Sortase D (SrtD) is a membrane transpeptidase found in gram-positive bacteria that anchors surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is cleaved...; Region: Sortase_D_4; cd05828 342610011595 active site 342610011596 catalytic site [active] 342610011597 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 342610011598 Uncharacterized conserved protein [Function unknown]; Region: COG2128 342610011599 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 342610011600 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 342610011601 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610011602 Walker A/P-loop; other site 342610011603 ATP binding site [chemical binding]; other site 342610011604 Q-loop/lid; other site 342610011605 ABC transporter signature motif; other site 342610011606 Walker B; other site 342610011607 D-loop; other site 342610011608 H-loop/switch region; other site 342610011609 ABC-2 type transporter; Region: ABC2_membrane; cl11417 342610011610 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 342610011611 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 342610011612 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 342610011613 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 342610011614 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 342610011615 catalytic residue [active] 342610011616 pantoate--beta-alanine ligase; Region: panC; TIGR00018 342610011617 Pantoate-beta-alanine ligase; Region: PanC; cd00560 342610011618 active site 342610011619 ATP-binding site [chemical binding]; other site 342610011620 pantoate-binding site; other site 342610011621 HXXH motif; other site 342610011622 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 342610011623 oligomerization interface [polypeptide binding]; other site 342610011624 active site 342610011625 metal binding site [ion binding]; metal-binding site 342610011626 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 342610011627 catalytic center binding site [active] 342610011628 ATP binding site [chemical binding]; other site 342610011629 poly(A) polymerase; Region: pcnB; TIGR01942 342610011630 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 342610011631 active site 342610011632 NTP binding site [chemical binding]; other site 342610011633 metal binding triad [ion binding]; metal-binding site 342610011634 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 342610011635 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 342610011636 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 342610011637 active site 342610011638 HIGH motif; other site 342610011639 nucleotide binding site [chemical binding]; other site 342610011640 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 342610011641 KMSKS motif; other site 342610011642 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 342610011643 Sugar fermentation stimulation protein; Region: SfsA; cl00647 342610011644 aminopeptidase B; Provisional; Region: PRK05015 342610011645 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 342610011646 interface (dimer of trimers) [polypeptide binding]; other site 342610011647 Substrate-binding/catalytic site; other site 342610011648 Zn-binding sites [ion binding]; other site 342610011649 MarC family integral membrane protein; Region: MarC; cl00919 342610011650 Protein of unknown function (DUF416); Region: DUF416; cl01166 342610011651 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 342610011652 S-adenosylmethionine binding site [chemical binding]; other site 342610011653 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 342610011654 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 342610011655 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 342610011656 P loop; other site 342610011657 GTP binding site [chemical binding]; other site 342610011658 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 342610011659 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610011660 Walker A/P-loop; other site 342610011661 ATP binding site [chemical binding]; other site 342610011662 Q-loop/lid; other site 342610011663 ABC transporter signature motif; other site 342610011664 Walker B; other site 342610011665 D-loop; other site 342610011666 H-loop/switch region; other site 342610011667 FtsX-like permease family; Region: FtsX; cl15850 342610011668 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 342610011669 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 342610011670 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 342610011671 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 342610011672 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 342610011673 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 342610011674 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 342610011675 DNA binding residues [nucleotide binding] 342610011676 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 342610011677 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 342610011678 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 342610011679 Coenzyme A binding pocket [chemical binding]; other site 342610011680 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 342610011681 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 342610011682 putative active site [active] 342610011683 dimerization interface [polypeptide binding]; other site 342610011684 putative tRNAtyr binding site [nucleotide binding]; other site 342610011685 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 342610011686 Serine carboxypeptidase S28; Region: Peptidase_S28; cl15279 342610011687 Protein of unknown function (DUF2959); Region: DUF2959; pfam11172 342610011688 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 342610011689 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 342610011690 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 342610011691 FAD binding site [chemical binding]; other site 342610011692 Met Repressor, MetJ. MetJ is a bacterial regulatory protein that uses S-adenosylmethionine (SAM) as a corepressor to regulate the production of Methionine. MetJ binds arrays of two to five adjacent copies of an eight base-pair 'metbox' sequence. MetJ...; Region: Met_repressor_MetJ; cd00490 342610011693 dimerization interface [polypeptide binding]; other site 342610011694 DNA binding site [nucleotide binding] 342610011695 corepressor binding sites; other site 342610011696 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 342610011697 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 342610011698 putative C-terminal domain interface [polypeptide binding]; other site 342610011699 putative GSH binding site (G-site) [chemical binding]; other site 342610011700 putative dimer interface [polypeptide binding]; other site 342610011701 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 342610011702 putative N-terminal domain interface [polypeptide binding]; other site 342610011703 putative dimer interface [polypeptide binding]; other site 342610011704 putative substrate binding pocket (H-site) [chemical binding]; other site 342610011705 Cytochrome c; Region: Cytochrom_C; cl11414 342610011706 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 342610011707 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; pfam02696 342610011708 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 342610011709 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 342610011710 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 342610011711 PAS domain; Region: PAS_9; pfam13426 342610011712 putative active site [active] 342610011713 heme pocket [chemical binding]; other site 342610011714 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610011715 metal binding site [ion binding]; metal-binding site 342610011716 active site 342610011717 I-site; other site 342610011718 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 342610011719 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 342610011720 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 342610011721 dimerization interface [polypeptide binding]; other site 342610011722 active site 342610011723 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 342610011724 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 342610011725 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; cl01113 342610011726 agmatine deiminase; Region: agmatine_aguA; TIGR03380 342610011727 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 342610011728 N-carbamolyputrescine amidase; Region: PLN02747 342610011729 putative active site; other site 342610011730 catalytic triad [active] 342610011731 putative dimer interface [polypeptide binding]; other site 342610011732 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 342610011733 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 342610011734 tetramer interface [polypeptide binding]; other site 342610011735 pyridoxal 5'-phosphate binding site [chemical binding]; other site 342610011736 catalytic residue [active] 342610011737 Protein of unknown function (DUF1696); Region: DUF1696; pfam08000 342610011738 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 342610011739 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 342610011740 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 342610011741 NADH(P)-binding; Region: NAD_binding_10; pfam13460 342610011742 NAD binding site [chemical binding]; other site 342610011743 active site 342610011744 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 342610011745 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 342610011746 S-adenosylmethionine binding site [chemical binding]; other site 342610011747 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 342610011748 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 342610011749 putative carbohydrate kinase; Provisional; Region: PRK10565 342610011750 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 342610011751 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 342610011752 putative substrate binding site [chemical binding]; other site 342610011753 putative ATP binding site [chemical binding]; other site 342610011754 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 342610011755 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 342610011756 AMIN domain; Region: AMIN; pfam11741 342610011757 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 342610011758 active site 342610011759 metal binding site [ion binding]; metal-binding site 342610011760 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 342610011761 putative peptidoglycan binding site; other site 342610011762 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 342610011763 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 342610011764 ATP binding site [chemical binding]; other site 342610011765 Mg2+ binding site [ion binding]; other site 342610011766 G-X-G motif; other site 342610011767 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 342610011768 ATP binding site [chemical binding]; other site 342610011769 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 342610011770 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610011771 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 342610011772 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 342610011773 Sm1 motif; other site 342610011774 intra - hexamer interaction site; other site 342610011775 inter - hexamer interaction site [polypeptide binding]; other site 342610011776 nucleotide binding pocket [chemical binding]; other site 342610011777 Sm2 motif; other site 342610011778 GTPase HflX; Provisional; Region: PRK11058 342610011779 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 342610011780 HflX GTPase family; Region: HflX; cd01878 342610011781 G1 box; other site 342610011782 GTP/Mg2+ binding site [chemical binding]; other site 342610011783 Switch I region; other site 342610011784 G2 box; other site 342610011785 G3 box; other site 342610011786 Switch II region; other site 342610011787 G4 box; other site 342610011788 G5 box; other site 342610011789 FtsH protease regulator HflK; Provisional; Region: PRK10930 342610011790 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 342610011791 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 342610011792 FtsH protease regulator HflC; Provisional; Region: PRK11029 342610011793 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 342610011794 Domain of unknown function (DUF3859); Region: DUF3859; pfam12975 342610011795 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 342610011796 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 342610011797 C-terminal domain interface [polypeptide binding]; other site 342610011798 GSH binding site (G-site) [chemical binding]; other site 342610011799 dimer interface [polypeptide binding]; other site 342610011800 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 342610011801 N-terminal domain interface [polypeptide binding]; other site 342610011802 dimer interface [polypeptide binding]; other site 342610011803 substrate binding pocket (H-site) [chemical binding]; other site 342610011804 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 342610011805 GST_N family, Saccharomyces cerevisiae GTT2-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT2. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing...; Region: GST_N_GTT2_like; cd03051 342610011806 putative C-terminal domain interface [polypeptide binding]; other site 342610011807 putative GSH binding site (G-site) [chemical binding]; other site 342610011808 putative dimer interface [polypeptide binding]; other site 342610011809 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 342610011810 N-terminal domain interface [polypeptide binding]; other site 342610011811 dimer interface [polypeptide binding]; other site 342610011812 substrate binding pocket (H-site) [chemical binding]; other site 342610011813 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 342610011814 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 342610011815 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 342610011816 ferrochelatase; Reviewed; Region: hemH; PRK00035 342610011817 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 342610011818 C-terminal domain interface [polypeptide binding]; other site 342610011819 active site 342610011820 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 342610011821 active site 342610011822 N-terminal domain interface [polypeptide binding]; other site 342610011823 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 342610011824 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 342610011825 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 342610011826 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 342610011827 ligand binding site [chemical binding]; other site 342610011828 Ras-related in brain (Rab) family of small guanosine triphosphatases (GTPases); Region: Rab; cd00154 342610011829 Rab subfamily motif 1 (RabSF1); other site 342610011830 Elongation factor Tu GTP binding domain; Region: GTP_EFTU; pfam00009 342610011831 G1 box; other site 342610011832 GTP/Mg2+ binding site [chemical binding]; other site 342610011833 Rab subfamily motif 2 (RabSF2); other site 342610011834 Switch I region; other site 342610011835 G2 box; other site 342610011836 effector interaction site; other site 342610011837 GDI interaction site; other site 342610011838 Rab family motif 1 (RabF1); other site 342610011839 GEF interaction site [polypeptide binding]; other site 342610011840 Rab family motif 2 (RabF2); other site 342610011841 G3 box; other site 342610011842 Switch II region; other site 342610011843 Rab family motif 3 (RabF3); other site 342610011844 Rab family motif 4 (RabF4); other site 342610011845 Rab family motif 5 (RabF5); other site 342610011846 Rab subfamily motif 3 (RabSF3); other site 342610011847 G4 box; other site 342610011848 G5 box; other site 342610011849 Rab subfamily motif 4 (RabSF4); other site 342610011850 PAS domain; Region: PAS_9; pfam13426 342610011851 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610011852 metal binding site [ion binding]; metal-binding site 342610011853 active site 342610011854 I-site; other site 342610011855 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 342610011856 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 342610011857 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 342610011858 FAD binding site [chemical binding]; other site 342610011859 substrate binding pocket [chemical binding]; other site 342610011860 catalytic base [active] 342610011861 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 342610011862 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 342610011863 active site 342610011864 catalytic tetrad [active] 342610011865 elongation factor Tu; Reviewed; Region: PRK00049 342610011866 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 342610011867 G1 box; other site 342610011868 GEF interaction site [polypeptide binding]; other site 342610011869 GTP/Mg2+ binding site [chemical binding]; other site 342610011870 Switch I region; other site 342610011871 G2 box; other site 342610011872 G3 box; other site 342610011873 Switch II region; other site 342610011874 G4 box; other site 342610011875 G5 box; other site 342610011876 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 342610011877 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 342610011878 Antibiotic Binding Site [chemical binding]; other site 342610011879 Type III pantothenate kinase; Region: Pan_kinase; cl09130 342610011880 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 342610011881 Helix-turn-helix domains; Region: HTH; cl00088 342610011882 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 342610011883 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 342610011884 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 342610011885 FAD binding domain; Region: FAD_binding_4; pfam01565 342610011886 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 342610011887 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 342610011888 Chain length determinant protein; Region: Wzz; cl15801 342610011889 Chain length determinant protein; Region: Wzz; cl15801 342610011890 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 342610011891 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 342610011892 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 342610011893 SLBB domain; Region: SLBB; pfam10531 342610011894 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 342610011895 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 342610011896 NAD(P) binding site [chemical binding]; other site 342610011897 homodimer interface [polypeptide binding]; other site 342610011898 substrate binding site [chemical binding]; other site 342610011899 active site 342610011900 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 342610011901 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 342610011902 inhibitor-cofactor binding pocket; inhibition site 342610011903 pyridoxal 5'-phosphate binding site [chemical binding]; other site 342610011904 catalytic residue [active] 342610011905 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 342610011906 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 342610011907 putative trimer interface [polypeptide binding]; other site 342610011908 putative CoA binding site [chemical binding]; other site 342610011909 Bacterial sugar transferase; Region: Bac_transf; cl00939 342610011910 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 342610011911 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 342610011912 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 342610011913 O-antigen polysaccharide polymerase Wzy; Region: O-ag_pol_Wzy; pfam14296 342610011914 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 342610011915 This family is most closely related to the GT1 family of glycosyltransferases. capH in Staphylococcus aureus has been shown to be required for the biosynthesis of the type 1 capsular polysaccharide (CP1); Region: GT1_CapH_like; cd03812 342610011916 putative ADP-binding pocket [chemical binding]; other site 342610011917 MatE; Region: MatE; cl10513 342610011918 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 342610011919 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 342610011920 active site clefts [active] 342610011921 zinc binding site [ion binding]; other site 342610011922 dimer interface [polypeptide binding]; other site 342610011923 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 342610011924 Helix-turn-helix domains; Region: HTH; cl00088 342610011925 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 342610011926 dimerization interface [polypeptide binding]; other site 342610011927 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 342610011928 RNA/DNA binding site [nucleotide binding]; other site 342610011929 RRM dimerization site [polypeptide binding]; other site 342610011930 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 342610011931 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 342610011932 pyridoxal 5'-phosphate binding site [chemical binding]; other site 342610011933 homodimer interface [polypeptide binding]; other site 342610011934 catalytic residue [active] 342610011935 NRDE protein; Region: NRDE; cl01315 342610011936 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 342610011937 phosphopeptide binding site; other site 342610011938 DHHC palmitoyltransferase; Region: zf-DHHC; pfam01529 342610011939 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 342610011940 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 342610011941 putative acyl-acceptor binding pocket; other site 342610011942 hypothetical protein; Provisional; Region: PRK05939 342610011943 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 342610011944 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 342610011945 catalytic residue [active] 342610011946 OsmC-like protein; Region: OsmC; cl00767 342610011947 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 342610011948 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 342610011949 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 342610011950 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 342610011951 homodimer interface [polypeptide binding]; other site 342610011952 substrate-cofactor binding pocket; other site 342610011953 pyridoxal 5'-phosphate binding site [chemical binding]; other site 342610011954 catalytic residue [active] 342610011955 alanine racemase; Reviewed; Region: alr; PRK00053 342610011956 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 342610011957 active site 342610011958 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 342610011959 substrate binding site [chemical binding]; other site 342610011960 catalytic residues [active] 342610011961 dimer interface [polypeptide binding]; other site 342610011962 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 342610011963 S-adenosylmethionine binding site [chemical binding]; other site 342610011964 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 342610011965 S-adenosylmethionine binding site [chemical binding]; other site 342610011966 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 342610011967 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 342610011968 active site 342610011969 phosphorylation site [posttranslational modification] 342610011970 intermolecular recognition site; other site 342610011971 dimerization interface [polypeptide binding]; other site 342610011972 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 342610011973 DNA binding residues [nucleotide binding] 342610011974 dimerization interface [polypeptide binding]; other site 342610011975 tRNA (uracil-5-)-methyltransferase; Region: trmA_only; TIGR02143 342610011976 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 342610011977 S-adenosylmethionine binding site [chemical binding]; other site 342610011978 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 342610011979 Helix-turn-helix domains; Region: HTH; cl00088 342610011980 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 342610011981 Di-iron ligands [ion binding]; other site 342610011982 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 342610011983 putative uracil binding site [chemical binding]; other site 342610011984 putative active site [active] 342610011985 Response regulator receiver domain; Region: Response_reg; pfam00072 342610011986 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 342610011987 active site 342610011988 phosphorylation site [posttranslational modification] 342610011989 intermolecular recognition site; other site 342610011990 dimerization interface [polypeptide binding]; other site 342610011991 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 342610011992 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610011993 metal binding site [ion binding]; metal-binding site 342610011994 active site 342610011995 I-site; other site 342610011996 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 342610011997 Protein of unknown function (DUF2806); Region: DUF2806; cl12560 342610011998 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 342610011999 Active Sites [active] 342610012000 sulfite reductase subunit beta; Provisional; Region: PRK13504 342610012001 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 342610012002 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 342610012003 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 342610012004 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 342610012005 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 342610012006 FAD binding pocket [chemical binding]; other site 342610012007 FAD binding motif [chemical binding]; other site 342610012008 catalytic residues [active] 342610012009 NAD binding pocket [chemical binding]; other site 342610012010 phosphate binding motif [ion binding]; other site 342610012011 beta-alpha-beta structure motif; other site 342610012012 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; cl11978 342610012013 Protein of unknown function (DUF461); Region: DUF461; cl01071 342610012014 phage shock protein A; Region: phageshock_pspA; TIGR02977 342610012015 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 342610012016 classical (c) SDRs; Region: SDR_c; cd05233 342610012017 NAD(P) binding site [chemical binding]; other site 342610012018 active site 342610012019 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 342610012020 AMP-binding enzyme; Region: AMP-binding; cl15778 342610012021 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 342610012022 trimer interface [polypeptide binding]; other site 342610012023 active site 342610012024 substrate binding site [chemical binding]; other site 342610012025 CoA binding site [chemical binding]; other site 342610012026 Acyltransferase family; Region: Acyl_transf_3; pfam01757 342610012027 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 342610012028 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 342610012029 FMN binding site [chemical binding]; other site 342610012030 active site 342610012031 catalytic residues [active] 342610012032 substrate binding site [chemical binding]; other site 342610012033 Uncharacterized conserved protein [Function unknown]; Region: COG2128 342610012034 PPOX class probable FMN-dependent enzyme, alr4036 family; Region: PPOX_FMN_cyano; TIGR04026 342610012035 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 342610012036 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 342610012037 active site 342610012038 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 342610012039 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 342610012040 putative acyl-acceptor binding pocket; other site 342610012041 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 342610012042 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 342610012043 putative acyl-acceptor binding pocket; other site 342610012044 Mechanosensitive ion channel; Region: MS_channel; pfam00924 342610012045 Protein of unknown function (DUF2884); Region: DUF2884; cl08135 342610012046 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 342610012047 putative NAD(P) binding site [chemical binding]; other site 342610012048 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 342610012049 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610012050 NAD(P) binding site [chemical binding]; other site 342610012051 active site 342610012052 Protein of unknown function, DUF393; Region: DUF393; cl01136 342610012053 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 342610012054 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 342610012055 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 342610012056 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 342610012057 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; cl15381 342610012058 Beta galactosidase small chain; Region: Bgal_small_N; cl03787 342610012059 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 342610012060 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 342610012061 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 342610012062 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 342610012063 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 342610012064 active site 342610012065 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 342610012066 diaminopimelate decarboxylase; Region: lysA; TIGR01048 342610012067 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 342610012068 active site 342610012069 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 342610012070 substrate binding site [chemical binding]; other site 342610012071 catalytic residues [active] 342610012072 dimer interface [polypeptide binding]; other site 342610012073 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 342610012074 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 342610012075 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 342610012076 GAF domain; Region: GAF; cl15785 342610012077 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 342610012078 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 342610012079 active site 342610012080 DNA binding site [nucleotide binding] 342610012081 Int/Topo IB signature motif; other site 342610012082 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 342610012083 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 342610012084 motif II; other site 342610012085 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 342610012086 serine acetyltransferase; Provisional; Region: cysE; PRK11132 342610012087 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 342610012088 trimer interface [polypeptide binding]; other site 342610012089 active site 342610012090 substrate binding site [chemical binding]; other site 342610012091 CoA binding site [chemical binding]; other site 342610012092 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 342610012093 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610012094 Family description; Region: UvrD_C_2; cl15862 342610012095 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 342610012096 Response regulator receiver domain; Region: Response_reg; pfam00072 342610012097 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 342610012098 active site 342610012099 phosphorylation site [posttranslational modification] 342610012100 intermolecular recognition site; other site 342610012101 dimerization interface [polypeptide binding]; other site 342610012102 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610012103 metal binding site [ion binding]; metal-binding site 342610012104 active site 342610012105 I-site; other site 342610012106 putative chloramphenical resistance permease RarD; Provisional; Region: PRK15430 342610012107 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 342610012108 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 342610012109 Predicted membrane protein (DUF2177); Region: DUF2177; cl02014 342610012110 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 342610012111 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 342610012112 putative catalytic residues [active] 342610012113 hypothetical protein; Provisional; Region: PRK12361 342610012114 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 342610012115 active site 342610012116 catalytic residues [active] 342610012117 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 342610012118 Conserved TM helix; Region: TM_helix; pfam05552 342610012119 mechanosensitive channel MscS; Provisional; Region: PRK10334 342610012120 Mechanosensitive ion channel; Region: MS_channel; pfam00924 342610012121 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 342610012122 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610012123 I-site; other site 342610012124 active site 342610012125 metal binding site [ion binding]; metal-binding site 342610012126 MAPEG family; Region: MAPEG; cl09190 342610012127 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 342610012128 cofactor binding site; other site 342610012129 DNA binding site [nucleotide binding] 342610012130 substrate interaction site [chemical binding]; other site 342610012131 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 342610012132 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 342610012133 Restriction endonuclease; Region: Mrr_cat; cl00516 342610012134 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3972 342610012135 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610012136 Family description; Region: UvrD_C_2; cl15862 342610012137 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 342610012138 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]; Region: COG1205 342610012139 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 342610012140 nucleotide binding region [chemical binding]; other site 342610012141 ATP-binding site [chemical binding]; other site 342610012142 DEAD-like helicases superfamily; Region: DEXDc; smart00487 342610012143 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610012144 putative recombination protein RecB; Provisional; Region: PRK13909 342610012145 Family description; Region: UvrD_C_2; cl15862 342610012146 Methyltransferase domain; Region: Methyltransf_31; pfam13847 342610012147 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 342610012148 S-adenosylmethionine binding site [chemical binding]; other site 342610012149 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 342610012150 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 342610012151 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610012152 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 342610012153 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610012154 metal binding site [ion binding]; metal-binding site 342610012155 active site 342610012156 I-site; other site 342610012157 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 342610012158 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 342610012159 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 342610012160 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 342610012161 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 342610012162 putative PBP binding loops; other site 342610012163 ABC-ATPase subunit interface; other site 342610012164 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 342610012165 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 342610012166 dimer interface [polypeptide binding]; other site 342610012167 conserved gate region; other site 342610012168 putative PBP binding loops; other site 342610012169 ABC-ATPase subunit interface; other site 342610012170 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 342610012171 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 342610012172 Walker A/P-loop; other site 342610012173 ATP binding site [chemical binding]; other site 342610012174 Q-loop/lid; other site 342610012175 ABC transporter signature motif; other site 342610012176 Walker B; other site 342610012177 D-loop; other site 342610012178 H-loop/switch region; other site 342610012179 TOBE domain; Region: TOBE_2; cl01440 342610012180 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 342610012181 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 342610012182 motif II; other site 342610012183 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 342610012184 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 342610012185 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 342610012186 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 342610012187 putative substrate binding site [chemical binding]; other site 342610012188 putative ATP binding site [chemical binding]; other site 342610012189 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 342610012190 Helix-turn-helix domains; Region: HTH; cl00088 342610012191 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 342610012192 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 342610012193 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 342610012194 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 342610012195 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 342610012196 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 342610012197 Helix-turn-helix domains; Region: HTH; cl00088 342610012198 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 342610012199 GST_N family, Saccharomyces cerevisiae GTT2-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT2. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing...; Region: GST_N_GTT2_like; cd03051 342610012200 putative C-terminal domain interface [polypeptide binding]; other site 342610012201 putative GSH binding site (G-site) [chemical binding]; other site 342610012202 putative dimer interface [polypeptide binding]; other site 342610012203 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 342610012204 N-terminal domain interface [polypeptide binding]; other site 342610012205 dimer interface [polypeptide binding]; other site 342610012206 substrate binding pocket (H-site) [chemical binding]; other site 342610012207 Cupin domain; Region: Cupin_2; cl09118 342610012208 Cupin domain; Region: Cupin_2; cl09118 342610012209 periplasmic protein; Provisional; Region: PRK10568 342610012210 BON domain; Region: BON; cl02771 342610012211 BON domain; Region: BON; cl02771 342610012212 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 342610012213 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 342610012214 active site 342610012215 catalytic tetrad [active] 342610012216 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 342610012217 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 342610012218 putative catalytic site [active] 342610012219 putative metal binding site [ion binding]; other site 342610012220 putative phosphate binding site [ion binding]; other site 342610012221 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 342610012222 Proteolipid membrane potential modulator; Region: Pmp3; cl00431 342610012223 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 342610012224 Mechanosensitive ion channel; Region: MS_channel; pfam00924 342610012225 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 342610012226 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 342610012227 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 342610012228 putative catalytic cysteine [active] 342610012229 gamma-glutamyl kinase; Provisional; Region: PRK13402 342610012230 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 342610012231 nucleotide binding site [chemical binding]; other site 342610012232 homotetrameric interface [polypeptide binding]; other site 342610012233 putative phosphate binding site [ion binding]; other site 342610012234 putative allosteric binding site; other site 342610012235 PUA domain; Region: PUA; cl00607 342610012236 Sodium:solute symporter family; Region: SSF; cl00456 342610012237 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 342610012238 Transcriptional regulators [Transcription]; Region: MarR; COG1846 342610012239 Helix-turn-helix domains; Region: HTH; cl00088 342610012240 Helix-turn-helix domains; Region: HTH; cl00088 342610012241 VacJ like lipoprotein; Region: VacJ; cl01073 342610012242 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 342610012243 Protein export membrane protein; Region: SecD_SecF; cl14618 342610012244 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 342610012245 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 342610012246 active site 342610012247 phosphorylation site [posttranslational modification] 342610012248 intermolecular recognition site; other site 342610012249 dimerization interface [polypeptide binding]; other site 342610012250 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 342610012251 dimer interface [polypeptide binding]; other site 342610012252 phosphorylation site [posttranslational modification] 342610012253 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 342610012254 ATP binding site [chemical binding]; other site 342610012255 Mg2+ binding site [ion binding]; other site 342610012256 G-X-G motif; other site 342610012257 Response regulator receiver domain; Region: Response_reg; pfam00072 342610012258 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 342610012259 active site 342610012260 phosphorylation site [posttranslational modification] 342610012261 intermolecular recognition site; other site 342610012262 dimerization interface [polypeptide binding]; other site 342610012263 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 342610012264 Response regulator receiver domain; Region: Response_reg; pfam00072 342610012265 active site 342610012266 phosphorylation site [posttranslational modification] 342610012267 intermolecular recognition site; other site 342610012268 dimerization interface [polypeptide binding]; other site 342610012269 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 342610012270 active site 342610012271 phosphorylation site [posttranslational modification] 342610012272 intermolecular recognition site; other site 342610012273 dimerization interface [polypeptide binding]; other site 342610012274 CHASE3 domain; Region: CHASE3; cl05000 342610012275 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 342610012276 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 342610012277 ATP binding site [chemical binding]; other site 342610012278 Mg2+ binding site [ion binding]; other site 342610012279 G-X-G motif; other site 342610012280 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 342610012281 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 342610012282 active site 342610012283 phosphorylation site [posttranslational modification] 342610012284 intermolecular recognition site; other site 342610012285 dimerization interface [polypeptide binding]; other site 342610012286 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 342610012287 Walker A motif; other site 342610012288 ATP binding site [chemical binding]; other site 342610012289 Walker B motif; other site 342610012290 arginine finger; other site 342610012291 Helix-turn-helix domains; Region: HTH; cl00088 342610012292 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 342610012293 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 342610012294 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 342610012295 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage...; Region: Peptidase_C39_like; cl00296 342610012296 RimK-like ATPgrasp N-terminal domain; Region: RLAN; pfam14401 342610012297 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 342610012298 ATP-grasp domain; Region: ATP-grasp_4; cl03087 342610012299 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 342610012300 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 342610012301 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 342610012302 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 342610012303 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 342610012304 amidase catalytic site [active] 342610012305 Zn binding residues [ion binding]; other site 342610012306 substrate binding site [chemical binding]; other site 342610012307 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 342610012308 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 342610012309 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 342610012310 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 342610012311 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 342610012312 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 342610012313 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_21; cd04680 342610012314 nudix motif; other site 342610012315 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 342610012316 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11557 342610012317 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 342610012318 putative active site [active] 342610012319 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610012320 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610012321 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 342610012322 Protein of unknown function (DUF1343); Region: DUF1343; cl01598 342610012323 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 342610012324 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 342610012325 putative active site [active] 342610012326 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 342610012327 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 342610012328 Sodium:solute symporter family; Region: SSF; cl00456 342610012329 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 342610012330 SH3 domain of SH3b2 type; Region: SH3_7; pfam12914 342610012331 NlpC/P60 family; Region: NLPC_P60; cl11438 342610012332 Protein of unknown function (DUF819); Region: DUF819; cl02317 342610012333 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 342610012334 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 342610012335 dimer interface [polypeptide binding]; other site 342610012336 active site 342610012337 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 342610012338 dimer interface [polypeptide binding]; other site 342610012339 active site 342610012340 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 342610012341 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 342610012342 active site 342610012343 dimer interface [polypeptide binding]; other site 342610012344 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 342610012345 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 342610012346 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 342610012347 dimer interface [polypeptide binding]; other site 342610012348 catalytic triad [active] 342610012349 Response regulator receiver domain; Region: Response_reg; pfam00072 342610012350 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 342610012351 active site 342610012352 phosphorylation site [posttranslational modification] 342610012353 intermolecular recognition site; other site 342610012354 dimerization interface [polypeptide binding]; other site 342610012355 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610012356 metal binding site [ion binding]; metal-binding site 342610012357 active site 342610012358 I-site; other site 342610012359 Fic/DOC family; Region: Fic; cl00960 342610012360 Fic family protein [Function unknown]; Region: COG3177 342610012361 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 342610012362 Interdomain contacts; other site 342610012363 Cytokine receptor motif; other site 342610012364 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 342610012365 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610012366 Walker A/P-loop; other site 342610012367 ATP binding site [chemical binding]; other site 342610012368 Q-loop/lid; other site 342610012369 ABC transporter signature motif; other site 342610012370 Walker B; other site 342610012371 D-loop; other site 342610012372 H-loop/switch region; other site 342610012373 ABC transporter; Region: ABC_tran_2; pfam12848 342610012374 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 342610012375 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 342610012376 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 342610012377 dimer interface [polypeptide binding]; other site 342610012378 putative CheW interface [polypeptide binding]; other site 342610012379 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 342610012380 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 342610012381 dimer interface [polypeptide binding]; other site 342610012382 putative CheW interface [polypeptide binding]; other site 342610012383 Protein of unknown function (DUF2855); Region: DUF2855; pfam11017 342610012384 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 342610012385 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610012386 Helix-turn-helix domains; Region: HTH; cl00088 342610012387 WHG domain; Region: WHG; pfam13305 342610012388 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 342610012389 Malic enzyme, N-terminal domain; Region: malic; pfam00390 342610012390 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 342610012391 putative NAD(P) binding site [chemical binding]; other site 342610012392 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 342610012393 primosome assembly protein PriA; Validated; Region: PRK05580 342610012394 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 342610012395 ATP binding site [chemical binding]; other site 342610012396 putative Mg++ binding site [ion binding]; other site 342610012397 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610012398 cell division protein FtsN; Region: ftsN; TIGR02223 342610012399 Sporulation related domain; Region: SPOR; cl10051 342610012400 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 342610012401 active site 342610012402 HslU subunit interaction site [polypeptide binding]; other site 342610012403 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 342610012404 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 342610012405 Walker A motif; other site 342610012406 ATP binding site [chemical binding]; other site 342610012407 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610012408 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 342610012409 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 342610012410 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 342610012411 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_C39A; cd02549 342610012412 putative active site [active] 342610012413 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 342610012414 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 342610012415 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 342610012416 Helix-turn-helix domains; Region: HTH; cl00088 342610012417 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 342610012418 dimerization interface [polypeptide binding]; other site 342610012419 Bacterial SH3 domain; Region: SH3_3; cl02551 342610012420 Bacterial SH3 domain; Region: SH3_3; cl02551 342610012421 Bacterial SH3 domain; Region: SH3_3; cl02551 342610012422 Protein of unknown function (DUF3380); Region: DUF3380; pfam11860 342610012423 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 342610012424 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 342610012425 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 342610012426 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK12933 342610012427 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 342610012428 Protein export membrane protein; Region: SecD_SecF; cl14618 342610012429 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13021 342610012430 Protein export membrane protein; Region: SecD_SecF; cl14618 342610012431 Uncharacterized ACR, YagE family COG1723; Region: DUF155; cl00751 342610012432 glutathione reductase; Validated; Region: PRK06116 342610012433 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 342610012434 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 342610012435 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 342610012436 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 342610012437 active site 342610012438 Zn binding site [ion binding]; other site 342610012439 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 342610012440 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 342610012441 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 342610012442 S-adenosylmethionine binding site [chemical binding]; other site 342610012443 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 342610012444 SCP-2 sterol transfer family; Region: SCP2; cl01225 342610012445 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 342610012446 twin arginine translocase protein A; Validated; Region: tatE; PRK01614 342610012447 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 342610012448 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 342610012449 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 342610012450 Protein of unknown function (DUF3121); Region: DUF3121; cl11879 342610012451 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 342610012452 active site 342610012453 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 342610012454 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 342610012455 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610012456 metal binding site [ion binding]; metal-binding site 342610012457 active site 342610012458 I-site; other site 342610012459 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 342610012460 dimer interface [polypeptide binding]; other site 342610012461 active site 342610012462 aspartate-rich active site metal binding site; other site 342610012463 allosteric magnesium binding site [ion binding]; other site 342610012464 Schiff base residues; other site 342610012465 guanosine pentaphosphate phosphohydrolase; Provisional; Region: PRK11031 342610012466 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 342610012467 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 342610012468 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 342610012469 ATP binding site [chemical binding]; other site 342610012470 Mg++ binding site [ion binding]; other site 342610012471 motif III; other site 342610012472 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 342610012473 nucleotide binding region [chemical binding]; other site 342610012474 ATP-binding site [chemical binding]; other site 342610012475 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 342610012476 catalytic residues [active] 342610012477 transcription termination factor Rho; Provisional; Region: rho; PRK09376 342610012478 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 342610012479 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 342610012480 RNA binding site [nucleotide binding]; other site 342610012481 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 342610012482 multimer interface [polypeptide binding]; other site 342610012483 Walker A motif; other site 342610012484 ATP binding site [chemical binding]; other site 342610012485 Walker B motif; other site 342610012486 AIR carboxylase; Region: AIRC; cl00310 342610012487 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 342610012488 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610012489 ATP-grasp domain; Region: ATP-grasp_4; cl03087 342610012490 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 342610012491 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 342610012492 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 342610012493 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 342610012494 RNA binding site [nucleotide binding]; other site 342610012495 SprA-related family; Region: SprA-related; pfam12118 342610012496 putative pimeloyl-BioC--CoA transferase BioH; Region: bioH; TIGR01738 342610012497 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 342610012498 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 342610012499 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_1; cd06238 342610012500 putative active site [active] 342610012501 Zn binding site [ion binding]; other site 342610012502 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 342610012503 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 342610012504 NifU-like domain; Region: NifU; cl00484 342610012505 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 342610012506 MatE; Region: MatE; cl10513 342610012507 MatE; Region: MatE; cl10513 342610012508 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 342610012509 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 342610012510 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 342610012511 Cu(I) binding site [ion binding]; other site 342610012512 UbiA prenyltransferase family; Region: UbiA; cl00337 342610012513 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 342610012514 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 342610012515 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 342610012516 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 342610012517 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 342610012518 Subunit III/VIIa interface [polypeptide binding]; other site 342610012519 Phospholipid binding site [chemical binding]; other site 342610012520 Subunit I/III interface [polypeptide binding]; other site 342610012521 Subunit III/VIb interface [polypeptide binding]; other site 342610012522 Subunit III/VIa interface; other site 342610012523 Subunit III/Vb interface [polypeptide binding]; other site 342610012524 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; cl01240 342610012525 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 342610012526 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 342610012527 Subunit I/III interface [polypeptide binding]; other site 342610012528 D-pathway; other site 342610012529 Subunit I/VIIc interface [polypeptide binding]; other site 342610012530 Subunit I/IV interface [polypeptide binding]; other site 342610012531 Subunit I/II interface [polypeptide binding]; other site 342610012532 Low-spin heme (heme a) binding site [chemical binding]; other site 342610012533 Subunit I/VIIa interface [polypeptide binding]; other site 342610012534 Subunit I/VIa interface [polypeptide binding]; other site 342610012535 Dimer interface; other site 342610012536 Putative water exit pathway; other site 342610012537 Binuclear center (heme a3/CuB) [ion binding]; other site 342610012538 K-pathway; other site 342610012539 Subunit I/Vb interface [polypeptide binding]; other site 342610012540 Putative proton exit pathway; other site 342610012541 Subunit I/VIb interface; other site 342610012542 Subunit I/VIc interface [polypeptide binding]; other site 342610012543 Electron transfer pathway; other site 342610012544 Subunit I/VIIIb interface [polypeptide binding]; other site 342610012545 Subunit I/VIIb interface [polypeptide binding]; other site 342610012546 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 342610012547 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 342610012548 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 342610012549 Cytochrome c; Region: Cytochrom_C; cl11414 342610012550 LexA repressor; Validated; Region: PRK00215 342610012551 Helix-turn-helix domains; Region: HTH; cl00088 342610012552 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 342610012553 Catalytic site [active] 342610012554 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 342610012555 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 342610012556 putative acyl-acceptor binding pocket; other site 342610012557 threonine dehydratase; Reviewed; Region: PRK09224 342610012558 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 342610012559 tetramer interface [polypeptide binding]; other site 342610012560 pyridoxal 5'-phosphate binding site [chemical binding]; other site 342610012561 catalytic residue [active] 342610012562 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 342610012563 putative Ile/Val binding site [chemical binding]; other site 342610012564 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 342610012565 putative Ile/Val binding site [chemical binding]; other site 342610012566 Dehydratase family; Region: ILVD_EDD; cl00340 342610012567 hypothetical protein; Provisional; Region: PRK10578 342610012568 UPF0126 domain; Region: UPF0126; pfam03458 342610012569 UPF0126 domain; Region: UPF0126; pfam03458 342610012570 Mg chelatase-related protein; Region: TIGR00368 342610012571 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 342610012572 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610012573 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 342610012574 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 342610012575 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 342610012576 Helix-turn-helix domains; Region: HTH; cl00088 342610012577 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 342610012578 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 342610012579 dimerization interface [polypeptide binding]; other site 342610012580 ketol-acid reductoisomerase; Validated; Region: PRK05225 342610012581 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610012582 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 342610012583 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 342610012584 putative outer membrane lipoprotein; Provisional; Region: PRK10510 342610012585 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 342610012586 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 342610012587 ligand binding site [chemical binding]; other site 342610012588 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 342610012589 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 342610012590 putative substrate translocation pore; other site 342610012591 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 342610012592 catalytic core [active] 342610012593 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 342610012594 active site clefts [active] 342610012595 zinc binding site [ion binding]; other site 342610012596 dimer interface [polypeptide binding]; other site 342610012597 EamA-like transporter family; Region: EamA; cl01037 342610012598 hypothetical protein; Provisional; Region: PRK08262 342610012599 M20 Peptidase, carboxypeptidase yscS; Region: M20_yscS; cd05674 342610012600 metal binding site [ion binding]; metal-binding site 342610012601 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 342610012602 Nidogen-like; Region: NIDO; cl02648 342610012603 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 342610012604 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 342610012605 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 342610012606 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 342610012607 putative catalytic cysteine [active] 342610012608 gamma-glutamyl kinase; Provisional; Region: PRK05429 342610012609 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 342610012610 nucleotide binding site [chemical binding]; other site 342610012611 homotetrameric interface [polypeptide binding]; other site 342610012612 putative phosphate binding site [ion binding]; other site 342610012613 putative allosteric binding site; other site 342610012614 PUA domain; Region: PUA; cl00607 342610012615 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 342610012616 Zn binding site [ion binding]; other site 342610012617 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 342610012618 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 342610012619 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 342610012620 Protein of unknown function (DUF3014); Region: DUF3014; pfam11219 342610012621 Protein of unknown function (DUF1285); Region: DUF1285; cl01571 342610012622 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 342610012623 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 342610012624 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 342610012625 active site 342610012626 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 342610012627 SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A...; Region: SirA; cd03423 342610012628 CPxP motif; other site 342610012629 orotate phosphoribosyltransferase; Validated; Region: pyrE; PRK00455 342610012630 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 342610012631 active site 342610012632 ribonuclease PH; Reviewed; Region: rph; PRK00173 342610012633 Ribonuclease PH; Region: RNase_PH_bact; cd11362 342610012634 hexamer interface [polypeptide binding]; other site 342610012635 active site 342610012636 hypothetical protein; Provisional; Region: PRK11820 342610012637 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 342610012638 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 342610012639 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 342610012640 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 342610012641 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 342610012642 Zn2+ binding site [ion binding]; other site 342610012643 Mg2+ binding site [ion binding]; other site 342610012644 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 342610012645 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610012646 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610012647 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 342610012648 SapC; Region: SapC; pfam07277 342610012649 JmjC domain, hydroxylase; Region: JmjC; cl15814 342610012650 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610012651 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 342610012652 DNA binding site [nucleotide binding] 342610012653 active site 342610012654 DTW domain; Region: DTW; cl01221 342610012655 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 342610012656 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 342610012657 dimer interface [polypeptide binding]; other site 342610012658 phosphorylation site [posttranslational modification] 342610012659 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 342610012660 ATP binding site [chemical binding]; other site 342610012661 Mg2+ binding site [ion binding]; other site 342610012662 G-X-G motif; other site 342610012663 Response regulator receiver domain; Region: Response_reg; pfam00072 342610012664 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 342610012665 active site 342610012666 phosphorylation site [posttranslational modification] 342610012667 intermolecular recognition site; other site 342610012668 dimerization interface [polypeptide binding]; other site 342610012669 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 342610012670 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 342610012671 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 342610012672 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 342610012673 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 342610012674 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 342610012675 alpha subunit interaction interface [polypeptide binding]; other site 342610012676 Walker A motif; other site 342610012677 ATP binding site [chemical binding]; other site 342610012678 Walker B motif; other site 342610012679 inhibitor binding site; inhibition site 342610012680 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 342610012681 ATP synthase; Region: ATP-synt; cl00365 342610012682 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 342610012683 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 342610012684 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 342610012685 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 342610012686 beta subunit interaction interface [polypeptide binding]; other site 342610012687 Walker A motif; other site 342610012688 ATP binding site [chemical binding]; other site 342610012689 Walker B motif; other site 342610012690 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 342610012691 Plant ATP synthase F0; Region: YMF19; cl07975 342610012692 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 342610012693 Plant ATP synthase F0; Region: YMF19; cl07975 342610012694 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 342610012695 ATP synthase subunit C; Region: ATP-synt_C; cl00466 342610012696 ATP synthase A chain; Region: ATP-synt_A; cl00413 342610012697 ATP synthase I chain; Region: ATP_synt_I; cl09170 342610012698 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 342610012699 ParB-like nuclease domain; Region: ParBc; cl02129 342610012700 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 342610012701 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 342610012702 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 342610012703 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 342610012704 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610012705 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 342610012706 hypothetical protein; Validated; Region: PRK08116 342610012707 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 342610012708 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 342610012709 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 342610012710 trmE is a tRNA modification GTPase; Region: trmE; cd04164 342610012711 G1 box; other site 342610012712 GTP/Mg2+ binding site [chemical binding]; other site 342610012713 Switch I region; other site 342610012714 G2 box; other site 342610012715 Switch II region; other site 342610012716 G3 box; other site 342610012717 G4 box; other site 342610012718 G5 box; other site 342610012719 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 342610012720 Protein of unknown function (DUF520); Region: DUF520; cl00723 342610012721 membrane protein insertase; Provisional; Region: PRK01318 342610012722 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 342610012723 Haemolytic domain; Region: Haemolytic; cl00506 342610012724 Ribonuclease P; Region: Ribonuclease_P; cl00457 342610012725 Ribosomal protein L34; Region: Ribosomal_L34; cl00370