-- dump date 20140619_064008 -- class Genbank::misc_feature -- table misc_feature_note -- id note 643562000001 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 643562000002 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 643562000003 P-loop; other site 643562000004 Magnesium ion binding site [ion binding]; other site 643562000005 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 643562000006 Magnesium ion binding site [ion binding]; other site 643562000007 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 643562000008 ParB-like nuclease domain; Region: ParB; smart00470 643562000009 KorB domain; Region: KorB; pfam08535 643562000010 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 643562000011 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 643562000012 putative ribose interaction site [chemical binding]; other site 643562000013 putative ADP binding site [chemical binding]; other site 643562000014 diphosphate--fructose-6-phosphate 1-phosphotransferase; Provisional; Region: PRK06830 643562000015 6-phosphofructokinase; Region: PLN02884 643562000016 active site 643562000017 ADP/pyrophosphate binding site [chemical binding]; other site 643562000018 dimerization interface [polypeptide binding]; other site 643562000019 allosteric effector site; other site 643562000020 fructose-1,6-bisphosphate binding site; other site 643562000021 Helix-turn-helix domain; Region: HTH_17; pfam12728 643562000022 Methyltransferase domain; Region: Methyltransf_23; pfam13489 643562000023 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 643562000024 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 643562000025 MarR family; Region: MarR_2; pfam12802 643562000026 Escherichia coli YdjC-like family of proteins; Region: YdjC; cd10808 643562000027 putative active site [active] 643562000028 YdjC motif; other site 643562000029 Mg binding site [ion binding]; other site 643562000030 putative homodimer interface [polypeptide binding]; other site 643562000031 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily. Adenine 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_I; cd01990 643562000032 Ligand Binding Site [chemical binding]; other site 643562000033 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 643562000034 AIR carboxylase; Region: AIRC; smart01001 643562000035 Protein of unknown function DUF111; Region: DUF111; cl03398 643562000036 Protein of unknown function (DUF3431); Region: DUF3431; pfam11913 643562000037 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 643562000038 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 643562000039 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 643562000040 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 643562000041 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 643562000042 WHG domain; Region: WHG; pfam13305 643562000043 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 643562000044 HlyD family secretion protein; Region: HlyD_3; pfam13437 643562000045 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 643562000046 Protein export membrane protein; Region: SecD_SecF; cl14618 643562000047 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 643562000048 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 643562000049 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 643562000050 Zn2+ binding site [ion binding]; other site 643562000051 Mg2+ binding site [ion binding]; other site 643562000052 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643562000053 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643562000054 metal binding site [ion binding]; metal-binding site 643562000055 active site 643562000056 I-site; other site 643562000057 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 643562000058 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 643562000059 Zn2+ binding site [ion binding]; other site 643562000060 Mg2+ binding site [ion binding]; other site 643562000061 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 643562000062 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 643562000063 active site 643562000064 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 643562000065 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 643562000066 active site 643562000067 phosphorylation site [posttranslational modification] 643562000068 intermolecular recognition site; other site 643562000069 PAS fold; Region: PAS_4; pfam08448 643562000070 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 643562000071 putative active site [active] 643562000072 heme pocket [chemical binding]; other site 643562000073 PAS domain S-box; Region: sensory_box; TIGR00229 643562000074 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 643562000075 putative active site [active] 643562000076 heme pocket [chemical binding]; other site 643562000077 PAS fold; Region: PAS_4; pfam08448 643562000078 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 643562000079 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 643562000080 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 643562000081 dimer interface [polypeptide binding]; other site 643562000082 phosphorylation site [posttranslational modification] 643562000083 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 643562000084 ATP binding site [chemical binding]; other site 643562000085 Mg2+ binding site [ion binding]; other site 643562000086 G-X-G motif; other site 643562000087 Response regulator receiver domain; Region: Response_reg; pfam00072 643562000088 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 643562000089 active site 643562000090 phosphorylation site [posttranslational modification] 643562000091 intermolecular recognition site; other site 643562000092 dimerization interface [polypeptide binding]; other site 643562000093 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 643562000094 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 643562000095 substrate binding pocket [chemical binding]; other site 643562000096 membrane-bound complex binding site; other site 643562000097 hinge residues; other site 643562000098 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 643562000099 PAS domain; Region: PAS; smart00091 643562000100 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 643562000101 dimer interface [polypeptide binding]; other site 643562000102 phosphorylation site [posttranslational modification] 643562000103 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 643562000104 ATP binding site [chemical binding]; other site 643562000105 Mg2+ binding site [ion binding]; other site 643562000106 G-X-G motif; other site 643562000107 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH4; cd08188 643562000108 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 643562000109 putative active site [active] 643562000110 metal binding site [ion binding]; metal-binding site 643562000111 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 643562000112 PAS domain S-box; Region: sensory_box; TIGR00229 643562000113 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 643562000114 putative active site [active] 643562000115 heme pocket [chemical binding]; other site 643562000116 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 643562000117 dimer interface [polypeptide binding]; other site 643562000118 phosphorylation site [posttranslational modification] 643562000119 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 643562000120 ATP binding site [chemical binding]; other site 643562000121 Mg2+ binding site [ion binding]; other site 643562000122 G-X-G motif; other site 643562000123 Response regulator receiver domain; Region: Response_reg; pfam00072 643562000124 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 643562000125 active site 643562000126 phosphorylation site [posttranslational modification] 643562000127 intermolecular recognition site; other site 643562000128 dimerization interface [polypeptide binding]; other site 643562000129 hybrid cluster protein; Provisional; Region: PRK05290 643562000130 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 643562000131 ACS interaction site; other site 643562000132 CODH interaction site; other site 643562000133 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 643562000134 hybrid metal cluster; other site 643562000135 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 643562000136 NADPH bind site [chemical binding]; other site 643562000137 putative FMN binding site [chemical binding]; other site 643562000138 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 643562000139 putative FMN binding site [chemical binding]; other site 643562000140 NADPH bind site [chemical binding]; other site 643562000141 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 643562000142 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 643562000143 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 643562000144 Zn2+ binding site [ion binding]; other site 643562000145 Mg2+ binding site [ion binding]; other site 643562000146 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 643562000147 EAL domain; Region: EAL; pfam00563 643562000148 glutamate racemase; Provisional; Region: PRK00865 643562000149 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 643562000150 Ligand Binding Site [chemical binding]; other site 643562000151 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 643562000152 Ligand Binding Site [chemical binding]; other site 643562000153 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 643562000154 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 643562000155 transmembrane helices; other site 643562000156 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 643562000157 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 643562000158 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 643562000159 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 643562000160 butyrate kinase; Provisional; Region: PRK03011 643562000161 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 643562000162 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 643562000163 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 643562000164 HDOD domain; Region: HDOD; pfam08668 643562000165 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 643562000166 Zn2+ binding site [ion binding]; other site 643562000167 Mg2+ binding site [ion binding]; other site 643562000168 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 643562000169 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 643562000170 Repair protein; Region: Repair_PSII; cl01535 643562000171 Repair protein; Region: Repair_PSII; pfam04536 643562000172 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 643562000173 Lysine efflux permease [General function prediction only]; Region: COG1279 643562000174 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 643562000175 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643562000176 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 643562000177 dimerization interface [polypeptide binding]; other site 643562000178 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 643562000179 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 643562000180 DNA-binding site [nucleotide binding]; DNA binding site 643562000181 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 643562000182 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643562000183 homodimer interface [polypeptide binding]; other site 643562000184 catalytic residue [active] 643562000185 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 643562000186 fumarate hydratase; Reviewed; Region: fumC; PRK00485 643562000187 Class II fumarases; Region: Fumarase_classII; cd01362 643562000188 active site 643562000189 tetramer interface [polypeptide binding]; other site 643562000190 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 643562000191 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 643562000192 Response regulator receiver domain; Region: Response_reg; pfam00072 643562000193 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 643562000194 active site 643562000195 phosphorylation site [posttranslational modification] 643562000196 intermolecular recognition site; other site 643562000197 dimerization interface [polypeptide binding]; other site 643562000198 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 643562000199 dimer interface [polypeptide binding]; other site 643562000200 phosphorylation site [posttranslational modification] 643562000201 Response regulator receiver domain; Region: Response_reg; pfam00072 643562000202 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 643562000203 active site 643562000204 phosphorylation site [posttranslational modification] 643562000205 intermolecular recognition site; other site 643562000206 dimerization interface [polypeptide binding]; other site 643562000207 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 643562000208 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 643562000209 dimer interface [polypeptide binding]; other site 643562000210 phosphorylation site [posttranslational modification] 643562000211 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 643562000212 ATP binding site [chemical binding]; other site 643562000213 Mg2+ binding site [ion binding]; other site 643562000214 G-X-G motif; other site 643562000215 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 643562000216 Response regulator receiver domain; Region: Response_reg; pfam00072 643562000217 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 643562000218 active site 643562000219 phosphorylation site [posttranslational modification] 643562000220 intermolecular recognition site; other site 643562000221 dimerization interface [polypeptide binding]; other site 643562000222 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 643562000223 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 643562000224 Sulfate transporter family; Region: Sulfate_transp; pfam00916 643562000225 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 643562000226 Sulfate transporter family; Region: Sulfate_transp; pfam00916 643562000227 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 643562000228 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 643562000229 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 643562000230 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 643562000231 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 643562000232 photolyase PhrII; Region: phr2; TIGR00591 643562000233 DNA photolyase; Region: DNA_photolyase; pfam00875 643562000234 Protein of Unknown function (DUF2784); Region: DUF2784; pfam10861 643562000235 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 643562000236 extended (e) SDRs; Region: SDR_e; cd08946 643562000237 NAD(P) binding site [chemical binding]; other site 643562000238 active site 643562000239 substrate binding site [chemical binding]; other site 643562000240 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 643562000241 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 643562000242 WcbM_like is a subfamily of nucleotidyl transferases; Region: NTP_transferase_WcbM_like; cd06915 643562000243 Substrate binding site; other site 643562000244 Mg++ binding site; other site 643562000245 metal-binding site 643562000246 Mg++ binding site; other site 643562000247 metal-binding site 643562000248 Predicted kinase related to galactokinase and mevalonate kinase [General function prediction only]; Region: COG2605 643562000249 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 643562000250 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 643562000251 TPP-binding site [chemical binding]; other site 643562000252 dimer interface [polypeptide binding]; other site 643562000253 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 643562000254 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 643562000255 PYR/PP interface [polypeptide binding]; other site 643562000256 dimer interface [polypeptide binding]; other site 643562000257 TPP binding site [chemical binding]; other site 643562000258 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 643562000259 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 643562000260 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 643562000261 NADP binding site [chemical binding]; other site 643562000262 active site 643562000263 putative substrate binding site [chemical binding]; other site 643562000264 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 643562000265 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 643562000266 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 643562000267 catalytic residue [active] 643562000268 B12 binding domain; Region: B12-binding; pfam02310 643562000269 B12 binding site [chemical binding]; other site 643562000270 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 643562000271 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 643562000272 FeS/SAM binding site; other site 643562000273 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 643562000274 Ligand binding site; other site 643562000275 Putative Catalytic site; other site 643562000276 DXD motif; other site 643562000277 Uncharacterized conserved protein [Function unknown]; Region: COG0398 643562000278 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 643562000279 Protein of unknown function (DUF1643); Region: DUF1643; pfam07799 643562000280 Hemerythrin; Region: Hemerythrin; cd12107 643562000281 Fe binding site [ion binding]; other site 643562000282 Protein of unknown function DUF115; Region: MAF_flag10; pfam01973 643562000283 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 643562000284 S-adenosylmethionine binding site [chemical binding]; other site 643562000285 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 643562000286 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 643562000287 active site 643562000288 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 643562000289 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 643562000290 active site 643562000291 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 643562000292 binding surface 643562000293 TPR motif; other site 643562000294 Tetratricopeptide repeat; Region: TPR_16; pfam13432 643562000295 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 643562000296 FeS/SAM binding site; other site 643562000297 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 643562000298 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 643562000299 binding surface 643562000300 Tetratricopeptide repeat; Region: TPR_16; pfam13432 643562000301 TPR motif; other site 643562000302 Tetratricopeptide repeat; Region: TPR_16; pfam13432 643562000303 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 643562000304 TPR motif; other site 643562000305 binding surface 643562000306 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 643562000307 TPR motif; other site 643562000308 binding surface 643562000309 Tetratricopeptide repeat; Region: TPR_16; pfam13432 643562000310 Methyltransferase domain; Region: Methyltransf_24; pfam13578 643562000311 Protein of unknown function DUF115; Region: MAF_flag10; cl17471 643562000312 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 643562000313 ligand binding site; other site 643562000314 tetramer interface; other site 643562000315 Methyltransferase domain; Region: Methyltransf_23; pfam13489 643562000316 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 643562000317 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 643562000318 active site 643562000319 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 643562000320 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 643562000321 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 643562000322 NAD binding site [chemical binding]; other site 643562000323 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 643562000324 extended (e) SDRs; Region: SDR_e; cd08946 643562000325 NAD(P) binding site [chemical binding]; other site 643562000326 active site 643562000327 substrate binding site [chemical binding]; other site 643562000328 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 643562000329 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 643562000330 motif II; other site 643562000331 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 643562000332 ligand binding site; other site 643562000333 tetramer interface; other site 643562000334 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 643562000335 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 643562000336 active site 643562000337 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 643562000338 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 643562000339 NAD binding site [chemical binding]; other site 643562000340 homodimer interface [polypeptide binding]; other site 643562000341 active site 643562000342 substrate binding site [chemical binding]; other site 643562000343 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 643562000344 FeS/SAM binding site; other site 643562000345 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 643562000346 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 643562000347 FeS/SAM binding site; other site 643562000348 PAS domain; Region: PAS_9; pfam13426 643562000349 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 643562000350 putative active site [active] 643562000351 heme pocket [chemical binding]; other site 643562000352 PAS domain; Region: PAS_9; pfam13426 643562000353 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 643562000354 dimer interface [polypeptide binding]; other site 643562000355 phosphorylation site [posttranslational modification] 643562000356 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 643562000357 ATP binding site [chemical binding]; other site 643562000358 Mg2+ binding site [ion binding]; other site 643562000359 G-X-G motif; other site 643562000360 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 643562000361 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 643562000362 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 643562000363 dimerization interface [polypeptide binding]; other site 643562000364 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 643562000365 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643562000366 dimer interface [polypeptide binding]; other site 643562000367 putative CheW interface [polypeptide binding]; other site 643562000368 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 643562000369 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 643562000370 putative active site [active] 643562000371 heme pocket [chemical binding]; other site 643562000372 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 643562000373 dimer interface [polypeptide binding]; other site 643562000374 phosphorylation site [posttranslational modification] 643562000375 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 643562000376 ATP binding site [chemical binding]; other site 643562000377 Mg2+ binding site [ion binding]; other site 643562000378 G-X-G motif; other site 643562000379 Response regulator receiver domain; Region: Response_reg; pfam00072 643562000380 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 643562000381 active site 643562000382 phosphorylation site [posttranslational modification] 643562000383 intermolecular recognition site; other site 643562000384 dimerization interface [polypeptide binding]; other site 643562000385 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 643562000386 dimer interface [polypeptide binding]; other site 643562000387 phosphorylation site [posttranslational modification] 643562000388 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 643562000389 ATP binding site [chemical binding]; other site 643562000390 Mg2+ binding site [ion binding]; other site 643562000391 G-X-G motif; other site 643562000392 Response regulator receiver domain; Region: Response_reg; pfam00072 643562000393 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 643562000394 active site 643562000395 phosphorylation site [posttranslational modification] 643562000396 intermolecular recognition site; other site 643562000397 dimerization interface [polypeptide binding]; other site 643562000398 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 643562000399 dimer interface [polypeptide binding]; other site 643562000400 phosphorylation site [posttranslational modification] 643562000401 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 643562000402 ATP binding site [chemical binding]; other site 643562000403 G-X-G motif; other site 643562000404 Response regulator receiver domain; Region: Response_reg; pfam00072 643562000405 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 643562000406 active site 643562000407 phosphorylation site [posttranslational modification] 643562000408 intermolecular recognition site; other site 643562000409 dimerization interface [polypeptide binding]; other site 643562000410 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 643562000411 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 643562000412 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 643562000413 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 643562000414 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 643562000415 Walker A motif; other site 643562000416 ATP binding site [chemical binding]; other site 643562000417 Walker B motif; other site 643562000418 arginine finger; other site 643562000419 Sugar-specific transcriptional regulator TrmB; Region: TrmB; cl17775 643562000420 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 643562000421 Ligand Binding Site [chemical binding]; other site 643562000422 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 643562000423 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 643562000424 Response regulator receiver domain; Region: Response_reg; pfam00072 643562000425 active site 643562000426 phosphorylation site [posttranslational modification] 643562000427 intermolecular recognition site; other site 643562000428 dimerization interface [polypeptide binding]; other site 643562000429 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 643562000430 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl17700 643562000431 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 643562000432 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 643562000433 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 643562000434 DNA binding site [nucleotide binding] 643562000435 catalytic residue [active] 643562000436 H2TH interface [polypeptide binding]; other site 643562000437 putative catalytic residues [active] 643562000438 turnover-facilitating residue; other site 643562000439 intercalation triad [nucleotide binding]; other site 643562000440 8OG recognition residue [nucleotide binding]; other site 643562000441 putative reading head residues; other site 643562000442 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 643562000443 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 643562000444 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 643562000445 MviN-like protein; Region: MVIN; pfam03023 643562000446 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 643562000447 Methyltransferase domain; Region: Methyltransf_26; pfam13659 643562000448 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 643562000449 Protein of unknown function (DUF3795); Region: DUF3795; pfam12675 643562000450 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 643562000451 AAA domain; Region: AAA_23; pfam13476 643562000452 Walker A/P-loop; other site 643562000453 ATP binding site [chemical binding]; other site 643562000454 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 643562000455 active site 643562000456 metal binding site [ion binding]; metal-binding site 643562000457 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 643562000458 Walker B; other site 643562000459 D-loop; other site 643562000460 H-loop/switch region; other site 643562000461 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 643562000462 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 643562000463 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 643562000464 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 643562000465 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 643562000466 Walker A/P-loop; other site 643562000467 ATP binding site [chemical binding]; other site 643562000468 Q-loop/lid; other site 643562000469 ABC transporter signature motif; other site 643562000470 Walker B; other site 643562000471 D-loop; other site 643562000472 H-loop/switch region; other site 643562000473 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 643562000474 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 643562000475 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 643562000476 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 643562000477 RNA binding site [nucleotide binding]; other site 643562000478 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 643562000479 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 643562000480 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 643562000481 dimerization interface [polypeptide binding]; other site 643562000482 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 643562000483 putative active site [active] 643562000484 heme pocket [chemical binding]; other site 643562000485 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 643562000486 dimer interface [polypeptide binding]; other site 643562000487 phosphorylation site [posttranslational modification] 643562000488 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 643562000489 ATP binding site [chemical binding]; other site 643562000490 Mg2+ binding site [ion binding]; other site 643562000491 G-X-G motif; other site 643562000492 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 643562000493 TIGR01777 family protein; Region: yfcH 643562000494 putative NAD(P) binding site [chemical binding]; other site 643562000495 putative active site [active] 643562000496 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 643562000497 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 643562000498 active site 643562000499 phosphorylation site [posttranslational modification] 643562000500 intermolecular recognition site; other site 643562000501 dimerization interface [polypeptide binding]; other site 643562000502 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 643562000503 Walker A motif; other site 643562000504 ATP binding site [chemical binding]; other site 643562000505 Walker B motif; other site 643562000506 arginine finger; other site 643562000507 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 643562000508 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 643562000509 S-adenosylmethionine binding site [chemical binding]; other site 643562000510 NAD-dependent deacetylase; Provisional; Region: PRK00481 643562000511 SIR2 family of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2-fam; cd01407 643562000512 NAD+ binding site [chemical binding]; other site 643562000513 substrate binding site [chemical binding]; other site 643562000514 Zn binding site [ion binding]; other site 643562000515 thioredoxin 2; Provisional; Region: PRK10996 643562000516 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 643562000517 catalytic residues [active] 643562000518 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 643562000519 CoenzymeA binding site [chemical binding]; other site 643562000520 subunit interaction site [polypeptide binding]; other site 643562000521 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 643562000522 PHB binding site; other site 643562000523 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 643562000524 FOG: CBS domain [General function prediction only]; Region: COG0517 643562000525 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the acetoin utilization proteins in bacteria. Acetoin is a product of fermentative metabolism in many prokaryotic and eukaryotic microorganisms. They produce...; Region: CBS_pair_ACT_assoc2; cd04585 643562000526 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 643562000527 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 643562000528 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 643562000529 putative ligand binding site [chemical binding]; other site 643562000530 HAMP domain; Region: HAMP; pfam00672 643562000531 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 643562000532 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 643562000533 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 643562000534 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 643562000535 dimer interface [polypeptide binding]; other site 643562000536 phosphorylation site [posttranslational modification] 643562000537 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 643562000538 ATP binding site [chemical binding]; other site 643562000539 Mg2+ binding site [ion binding]; other site 643562000540 G-X-G motif; other site 643562000541 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 643562000542 active site 643562000543 phosphorylation site [posttranslational modification] 643562000544 intermolecular recognition site; other site 643562000545 dimerization interface [polypeptide binding]; other site 643562000546 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 643562000547 anti sigma factor interaction site; other site 643562000548 regulatory phosphorylation site [posttranslational modification]; other site 643562000549 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 643562000550 Peroxiredoxin (PRX) family, AhpE-like subfamily; composed of proteins similar to Mycobacterium tuberculosis AhpE. AhpE is described as a 1-cys PRX because of the absence of a resolving cysteine. The structure and sequence of AhpE, however, show greater...; Region: PRX_AhpE_like; cd03018 643562000551 dimer interface [polypeptide binding]; other site 643562000552 catalytic triad [active] 643562000553 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 643562000554 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 643562000555 catalytic residues [active] 643562000556 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 643562000557 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 643562000558 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 643562000559 molybdopterin cofactor binding site; other site 643562000560 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 643562000561 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 643562000562 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 643562000563 molybdopterin cofactor binding site; other site 643562000564 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 643562000565 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 643562000566 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 643562000567 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 643562000568 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 643562000569 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 643562000570 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 643562000571 dimer interface [polypeptide binding]; other site 643562000572 putative functional site; other site 643562000573 putative MPT binding site; other site 643562000574 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 643562000575 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 643562000576 Walker A motif; other site 643562000577 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 643562000578 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 643562000579 GTP binding site; other site 643562000580 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 643562000581 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 643562000582 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 643562000583 HlyD family secretion protein; Region: HlyD_3; pfam13437 643562000584 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 643562000585 Protein export membrane protein; Region: SecD_SecF; cl14618 643562000586 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]; Region: GCD14; COG2519 643562000587 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; cl17173 643562000588 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 643562000589 Radical SAM superfamily; Region: Radical_SAM; pfam04055 643562000590 FeS/SAM binding site; other site 643562000591 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 643562000592 putative DNA binding site [nucleotide binding]; other site 643562000593 putative Zn2+ binding site [ion binding]; other site 643562000594 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 643562000595 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 643562000596 homodimer interface [polypeptide binding]; other site 643562000597 oligonucleotide binding site [chemical binding]; other site 643562000598 Uncharacterized BCR, COG1636; Region: DUF208; pfam02677 643562000599 coproporphyrinogen III oxidase; Provisional; Region: PRK07379 643562000600 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 643562000601 FeS/SAM binding site; other site 643562000602 HemN C-terminal domain; Region: HemN_C; pfam06969 643562000603 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 643562000604 RNA/DNA hybrid binding site [nucleotide binding]; other site 643562000605 active site 643562000606 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 643562000607 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 643562000608 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 643562000609 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 643562000610 FtsX-like permease family; Region: FtsX; pfam02687 643562000611 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 643562000612 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 643562000613 Walker A/P-loop; other site 643562000614 ATP binding site [chemical binding]; other site 643562000615 Q-loop/lid; other site 643562000616 ABC transporter signature motif; other site 643562000617 Walker B; other site 643562000618 D-loop; other site 643562000619 H-loop/switch region; other site 643562000620 macrolide transporter subunit MacA; Provisional; Region: PRK11578 643562000621 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 643562000622 HlyD family secretion protein; Region: HlyD_3; pfam13437 643562000623 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 643562000624 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 643562000625 active site 643562000626 substrate binding site [chemical binding]; other site 643562000627 metal binding site [ion binding]; metal-binding site 643562000628 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 643562000629 HflK protein; Region: hflK; TIGR01933 643562000630 HflC protein; Region: hflC; TIGR01932 643562000631 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 643562000632 Bacteriophage CI repressor helix-turn-helix domain; Region: Phage_CI_repr; pfam07022 643562000633 Predicted transcriptional regulator [Transcription]; Region: COG2932 643562000634 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cd06462 643562000635 Catalytic site [active] 643562000636 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 643562000637 active site 643562000638 oligomerization interface [polypeptide binding]; other site 643562000639 metal binding site [ion binding]; metal-binding site 643562000640 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG3366 643562000641 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 643562000642 CAAX protease self-immunity; Region: Abi; pfam02517 643562000643 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 643562000644 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 643562000645 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 643562000646 CoA binding domain; Region: CoA_binding_2; pfam13380 643562000647 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 643562000648 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 643562000649 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 643562000650 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 643562000651 acetyl-CoA synthetase; Provisional; Region: PRK00174 643562000652 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 643562000653 active site 643562000654 CoA binding site [chemical binding]; other site 643562000655 acyl-activating enzyme (AAE) consensus motif; other site 643562000656 AMP binding site [chemical binding]; other site 643562000657 acetate binding site [chemical binding]; other site 643562000658 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 643562000659 putative CheA interaction surface; other site 643562000660 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 643562000661 dimerization interface [polypeptide binding]; other site 643562000662 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 643562000663 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643562000664 dimer interface [polypeptide binding]; other site 643562000665 putative CheW interface [polypeptide binding]; other site 643562000666 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 643562000667 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 643562000668 Amidohydrolase; Region: Amidohydro_4; pfam13147 643562000669 active site 643562000670 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 643562000671 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 643562000672 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 643562000673 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 643562000674 putative active site; other site 643562000675 catalytic residue [active] 643562000676 Armadillo/beta-catenin-like repeats. An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin; Region: ARM; cd00020 643562000677 HEAT repeats; Region: HEAT_2; pfam13646 643562000678 protein binding surface [polypeptide binding]; other site 643562000679 Helix-turn-helix domain; Region: HTH_19; pfam12844 643562000680 MarC family integral membrane protein; Region: MarC; cl00919 643562000681 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cd06462 643562000682 Catalytic site [active] 643562000683 NLPC_P60 stabilising domain, N term; Region: N_NLPC_P60; pfam12912 643562000684 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 643562000685 SH3 domain of SH3b2 type; Region: SH3_7; pfam12914 643562000686 NlpC/P60 family; Region: NLPC_P60; cl17555 643562000687 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 643562000688 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 643562000689 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 643562000690 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 643562000691 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 643562000692 dimerization interface [polypeptide binding]; other site 643562000693 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643562000694 dimer interface [polypeptide binding]; other site 643562000695 putative CheW interface [polypeptide binding]; other site 643562000696 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 643562000697 Zn2+ binding site [ion binding]; other site 643562000698 Mg2+ binding site [ion binding]; other site 643562000699 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 643562000700 Zn2+ binding site [ion binding]; other site 643562000701 Mg2+ binding site [ion binding]; other site 643562000702 hypothetical protein; Region: PHA00662 643562000703 Protein kinase domain; Region: Pkinase; pfam00069 643562000704 Catalytic domain of Protein Kinases; Region: PKc; cd00180 643562000705 active site 643562000706 ATP binding site [chemical binding]; other site 643562000707 substrate binding site [chemical binding]; other site 643562000708 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 643562000709 substrate binding site [chemical binding]; other site 643562000710 activation loop (A-loop); other site 643562000711 activation loop (A-loop); other site 643562000712 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 643562000713 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 643562000714 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 643562000715 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 643562000716 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...; Region: LT_GEWL; cd00254 643562000717 N-acetyl-D-glucosamine binding site [chemical binding]; other site 643562000718 catalytic residue [active] 643562000719 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 643562000720 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 643562000721 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 643562000722 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 643562000723 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 643562000724 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 643562000725 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 643562000726 active site 643562000727 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; cd01635 643562000728 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 643562000729 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 643562000730 EamA-like transporter family; Region: EamA; cl17759 643562000731 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 643562000732 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 643562000733 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 643562000734 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 643562000735 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 643562000736 active site 643562000737 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14460 643562000738 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 643562000739 FeS/SAM binding site; other site 643562000740 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 643562000741 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 643562000742 ATP binding site [chemical binding]; other site 643562000743 putative Mg++ binding site [ion binding]; other site 643562000744 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 643562000745 nucleotide binding region [chemical binding]; other site 643562000746 ATP-binding site [chemical binding]; other site 643562000747 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 643562000748 HRDC domain; Region: HRDC; pfam00570 643562000749 Protein of unknown function DUF116; Region: DUF116; pfam01976 643562000750 ADP-heptose:LPS heptosyl transferase I; Provisional; Region: PRK10964; cl15782 643562000751 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 643562000752 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 643562000753 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 643562000754 putative active site [active] 643562000755 substrate binding site [chemical binding]; other site 643562000756 putative cosubstrate binding site; other site 643562000757 catalytic site [active] 643562000758 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 643562000759 substrate binding site [chemical binding]; other site 643562000760 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 643562000761 active site 643562000762 catalytic residues [active] 643562000763 metal binding site [ion binding]; metal-binding site 643562000764 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 643562000765 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 643562000766 dimer interface [polypeptide binding]; other site 643562000767 anticodon binding site; other site 643562000768 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...; Region: AspRS_core; cd00777 643562000769 homodimer interface [polypeptide binding]; other site 643562000770 motif 1; other site 643562000771 active site 643562000772 motif 2; other site 643562000773 GAD domain; Region: GAD; pfam02938 643562000774 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...; Region: class_II_aaRS-like_core; cl00268 643562000775 active site 643562000776 motif 3; other site 643562000777 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 643562000778 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...; Region: HisRS-like_core; cd00773 643562000779 dimer interface [polypeptide binding]; other site 643562000780 motif 1; other site 643562000781 active site 643562000782 motif 2; other site 643562000783 motif 3; other site 643562000784 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 643562000785 anticodon binding site; other site 643562000786 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 643562000787 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 643562000788 molybdopterin cofactor binding site; other site 643562000789 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 643562000790 molybdopterin cofactor binding site; other site 643562000791 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 643562000792 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 643562000793 TM-ABC transporter signature motif; other site 643562000794 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 643562000795 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 643562000796 TM-ABC transporter signature motif; other site 643562000797 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 643562000798 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 643562000799 Walker A/P-loop; other site 643562000800 ATP binding site [chemical binding]; other site 643562000801 Q-loop/lid; other site 643562000802 ABC transporter signature motif; other site 643562000803 Walker B; other site 643562000804 D-loop; other site 643562000805 H-loop/switch region; other site 643562000806 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 643562000807 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 643562000808 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 643562000809 putative ligand binding site [chemical binding]; other site 643562000810 heat shock protein 90; Provisional; Region: PRK05218 643562000811 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 643562000812 ATP binding site [chemical binding]; other site 643562000813 Mg2+ binding site [ion binding]; other site 643562000814 G-X-G motif; other site 643562000815 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 643562000816 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 643562000817 DNA binding residues [nucleotide binding] 643562000818 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 643562000819 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII; cd09992 643562000820 active site 643562000821 Zn binding site [ion binding]; other site 643562000822 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 643562000823 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 643562000824 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 643562000825 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 643562000826 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 643562000827 putative active site [active] 643562000828 DsrE/DsrF-like family; Region: DrsE; pfam02635 643562000829 Uncharacterized conserved protein [Function unknown]; Region: COG2006 643562000830 Domain of unknown function (DUF362); Region: DUF362; pfam04015 643562000831 DNA topoisomerase I; Validated; Region: PRK06599 643562000832 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 643562000833 active site 643562000834 interdomain interaction site; other site 643562000835 putative metal-binding site [ion binding]; other site 643562000836 nucleotide binding site [chemical binding]; other site 643562000837 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 643562000838 domain I; other site 643562000839 DNA binding groove [nucleotide binding] 643562000840 phosphate binding site [ion binding]; other site 643562000841 domain II; other site 643562000842 domain III; other site 643562000843 nucleotide binding site [chemical binding]; other site 643562000844 catalytic site [active] 643562000845 domain IV; other site 643562000846 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 643562000847 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 643562000848 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 643562000849 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 643562000850 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 643562000851 active site 643562000852 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 643562000853 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 643562000854 catalytic residue [active] 643562000855 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 643562000856 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 643562000857 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 643562000858 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 643562000859 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 643562000860 ligand binding site [chemical binding]; other site 643562000861 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 643562000862 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 643562000863 ligand binding site [chemical binding]; other site 643562000864 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 643562000865 flagellar motor switch protein; Validated; Region: fliN; PRK05698 643562000866 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 643562000867 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 643562000868 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 643562000869 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 643562000870 AAA domain; Region: AAA_32; pfam13654 643562000871 Predicted phosphoesterases, related to the Icc protein [General function prediction only]; Region: COG2129 643562000872 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 643562000873 active site 643562000874 metal binding site [ion binding]; metal-binding site 643562000875 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 643562000876 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; cl17173 643562000877 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 643562000878 S-adenosylmethionine binding site [chemical binding]; other site 643562000879 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; cl17726 643562000880 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 643562000881 dimerization interface [polypeptide binding]; other site 643562000882 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 643562000883 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 643562000884 Lipopolysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: RgpF; COG3754 643562000885 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 643562000886 aspartate 4-decarboxylase; Region: asp_4_decarbox; TIGR03801 643562000887 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 643562000888 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643562000889 homodimer interface [polypeptide binding]; other site 643562000890 catalytic residue [active] 643562000891 Uncharacterized member of the PurR regulon [General function prediction only]; Region: yhhQ; COG1738 643562000892 Sporulation related domain; Region: SPOR; pfam05036 643562000893 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 643562000894 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 643562000895 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 643562000896 active site 643562000897 HIGH motif; other site 643562000898 KMSK motif region; other site 643562000899 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 643562000900 tRNA binding surface [nucleotide binding]; other site 643562000901 anticodon binding site; other site 643562000902 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 643562000903 AzlC protein; Region: AzlC; pfam03591 643562000904 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 643562000905 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 643562000906 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 643562000907 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643562000908 homodimer interface [polypeptide binding]; other site 643562000909 catalytic residue [active] 643562000910 DNA repair protein RadA; Provisional; Region: PRK11823 643562000911 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 643562000912 Walker A motif; other site 643562000913 ATP binding site [chemical binding]; other site 643562000914 Walker B motif; other site 643562000915 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 643562000916 glucose-6-phosphate isomerase; Provisional; Region: PRK00973 643562000917 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 643562000918 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 643562000919 dimer interface [polypeptide binding]; other site 643562000920 active site 643562000921 sensor protein ZraS; Provisional; Region: PRK10364 643562000922 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 643562000923 dimer interface [polypeptide binding]; other site 643562000924 phosphorylation site [posttranslational modification] 643562000925 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 643562000926 ATP binding site [chemical binding]; other site 643562000927 Mg2+ binding site [ion binding]; other site 643562000928 G-X-G motif; other site 643562000929 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 643562000930 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 643562000931 active site 643562000932 catalytic residues [active] 643562000933 Int/Topo IB signature motif; other site 643562000934 DNA binding site [nucleotide binding] 643562000935 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_19; cd08518 643562000936 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 643562000937 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 643562000938 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643562000939 dimer interface [polypeptide binding]; other site 643562000940 conserved gate region; other site 643562000941 putative PBP binding loops; other site 643562000942 ABC-ATPase subunit interface; other site 643562000943 nickel transporter permease NikC; Provisional; Region: nikC; PRK10417 643562000944 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643562000945 dimer interface [polypeptide binding]; other site 643562000946 conserved gate region; other site 643562000947 putative PBP binding loops; other site 643562000948 ABC-ATPase subunit interface; other site 643562000949 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 643562000950 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 643562000951 Walker A/P-loop; other site 643562000952 ATP binding site [chemical binding]; other site 643562000953 Q-loop/lid; other site 643562000954 ABC transporter signature motif; other site 643562000955 Walker B; other site 643562000956 D-loop; other site 643562000957 H-loop/switch region; other site 643562000958 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 643562000959 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 643562000960 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 643562000961 Walker A/P-loop; other site 643562000962 ATP binding site [chemical binding]; other site 643562000963 Q-loop/lid; other site 643562000964 ABC transporter signature motif; other site 643562000965 Walker B; other site 643562000966 D-loop; other site 643562000967 H-loop/switch region; other site 643562000968 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 643562000969 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 643562000970 G1 box; other site 643562000971 GTP/Mg2+ binding site [chemical binding]; other site 643562000972 Switch I region; other site 643562000973 G2 box; other site 643562000974 Switch II region; other site 643562000975 G3 box; other site 643562000976 G4 box; other site 643562000977 G5 box; other site 643562000978 biotin synthase; Provisional; Region: PRK07094 643562000979 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 643562000980 FeS/SAM binding site; other site 643562000981 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 643562000982 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 643562000983 Aspartase; Region: Aspartase; cd01357 643562000984 active sites [active] 643562000985 tetramer interface [polypeptide binding]; other site 643562000986 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09613 643562000987 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 643562000988 FeS/SAM binding site; other site 643562000989 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 643562000990 putative iron-only hydrogenase system regulator; Region: hyd_TM1266; TIGR03959 643562000991 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 643562000992 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; smart00902 643562000993 4Fe-4S binding domain; Region: Fer4; pfam00037 643562000994 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 643562000995 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 643562000996 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 643562000997 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 643562000998 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 643562000999 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 643562001000 EamA-like transporter family; Region: EamA; pfam00892 643562001001 EamA-like transporter family; Region: EamA; pfam00892 643562001002 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 643562001003 EamA-like transporter family; Region: EamA; cl17759 643562001004 EamA-like transporter family; Region: EamA; pfam00892 643562001005 cupin fold metalloprotein, WbuC family; Region: cupin_WbuC; TIGR04366 643562001006 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 643562001007 Coenzyme A binding pocket [chemical binding]; other site 643562001008 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u4; cd10928 643562001009 NodB motif; other site 643562001010 putative active site [active] 643562001011 putative catalytic site [active] 643562001012 putative Zn binding site [ion binding]; other site 643562001013 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 643562001014 Radical SAM superfamily; Region: Radical_SAM; pfam04055 643562001015 FeS/SAM binding site; other site 643562001016 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 643562001017 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 643562001018 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 643562001019 putative ADP-binding pocket [chemical binding]; other site 643562001020 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 643562001021 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 643562001022 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 643562001023 Putative zinc ribbon domain; Region: DUF164; pfam02591 643562001024 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 643562001025 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 643562001026 substrate binding site; other site 643562001027 dimer interface; other site 643562001028 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 643562001029 homotrimer interaction site [polypeptide binding]; other site 643562001030 zinc binding site [ion binding]; other site 643562001031 CDP-binding sites; other site 643562001032 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 643562001033 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 643562001034 active site 643562001035 HIGH motif; other site 643562001036 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 643562001037 KMSKS motif; other site 643562001038 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 643562001039 tRNA binding surface [nucleotide binding]; other site 643562001040 anticodon binding site; other site 643562001041 hypothetical protein; Region: PHA00670 643562001042 Bacteriophage head to tail connecting protein; Region: Head-tail_con; pfam12236 643562001043 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 643562001044 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 643562001045 Transposase [DNA replication, recombination, and repair]; Region: COG5433 643562001046 Transposase [DNA replication, recombination, and repair]; Region: COG5433 643562001047 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 643562001048 Terminase-like family; Region: Terminase_6; pfam03237 643562001049 large terminase protein; Provisional; Region: 17; PHA02533 643562001050 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 643562001051 TPR motif; other site 643562001052 TPR repeat; Region: TPR_11; pfam13414 643562001053 binding surface 643562001054 TPR repeat; Region: TPR_11; pfam13414 643562001055 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 643562001056 TPR motif; other site 643562001057 binding surface 643562001058 TPR repeat; Region: TPR_11; pfam13414 643562001059 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 643562001060 binding surface 643562001061 TPR repeat; Region: TPR_11; pfam13414 643562001062 TPR motif; other site 643562001063 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 643562001064 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 643562001065 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 643562001066 FMN binding site [chemical binding]; other site 643562001067 active site 643562001068 catalytic residues [active] 643562001069 substrate binding site [chemical binding]; other site 643562001070 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 643562001071 EamA-like transporter family; Region: EamA; pfam00892 643562001072 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 643562001073 EamA-like transporter family; Region: EamA; pfam00892 643562001074 SlyX; Region: SlyX; pfam04102 643562001075 Uncharacterized conserved protein [Function unknown]; Region: COG3542 643562001076 SPRY domain-like in bacteria; Region: SPRY_like; cd12886 643562001077 hypothetical protein; Region: PHA00661 643562001078 hypothetical protein; Region: PHA00661 643562001079 hypothetical protein; Region: PHA00661 643562001080 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 643562001081 PAS domain S-box; Region: sensory_box; TIGR00229 643562001082 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 643562001083 putative active site [active] 643562001084 heme pocket [chemical binding]; other site 643562001085 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643562001086 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643562001087 metal binding site [ion binding]; metal-binding site 643562001088 active site 643562001089 I-site; other site 643562001090 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 643562001091 PAS domain S-box; Region: sensory_box; TIGR00229 643562001092 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 643562001093 putative active site [active] 643562001094 heme pocket [chemical binding]; other site 643562001095 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 643562001096 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 643562001097 putative active site [active] 643562001098 heme pocket [chemical binding]; other site 643562001099 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 643562001100 putative active site [active] 643562001101 heme pocket [chemical binding]; other site 643562001102 PAS domain S-box; Region: sensory_box; TIGR00229 643562001103 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 643562001104 putative active site [active] 643562001105 heme pocket [chemical binding]; other site 643562001106 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643562001107 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643562001108 metal binding site [ion binding]; metal-binding site 643562001109 active site 643562001110 I-site; other site 643562001111 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643562001112 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643562001113 metal binding site [ion binding]; metal-binding site 643562001114 active site 643562001115 I-site; other site 643562001116 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 643562001117 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 643562001118 4Fe-4S binding domain; Region: Fer4; pfam00037 643562001119 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 643562001120 FMN binding site [chemical binding]; other site 643562001121 dimer interface [polypeptide binding]; other site 643562001122 3D domain; Region: 3D; cl01439 643562001123 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; pfam03306 643562001124 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 643562001125 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 643562001126 putative ADP-binding pocket [chemical binding]; other site 643562001127 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 643562001128 putative binding surface; other site 643562001129 active site 643562001130 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 643562001131 Cache domain; Region: Cache_1; pfam02743 643562001132 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 643562001133 dimerization interface [polypeptide binding]; other site 643562001134 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 643562001135 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643562001136 dimer interface [polypeptide binding]; other site 643562001137 putative CheW interface [polypeptide binding]; other site 643562001138 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 643562001139 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 643562001140 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 643562001141 Tetratricopeptide repeat; Region: TPR_12; pfam13424 643562001142 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 643562001143 binding surface 643562001144 TPR motif; other site 643562001145 Tetratricopeptide repeat; Region: TPR_12; pfam13424 643562001146 Tetratricopeptide repeat; Region: TPR_12; pfam13424 643562001147 Tetratricopeptide repeat; Region: TPR_10; pfam13374 643562001148 HAMP domain; Region: HAMP; pfam00672 643562001149 dimerization interface [polypeptide binding]; other site 643562001150 PAS fold; Region: PAS; pfam00989 643562001151 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 643562001152 putative active site [active] 643562001153 heme pocket [chemical binding]; other site 643562001154 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 643562001155 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 643562001156 dimer interface [polypeptide binding]; other site 643562001157 phosphorylation site [posttranslational modification] 643562001158 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 643562001159 ATP binding site [chemical binding]; other site 643562001160 Mg2+ binding site [ion binding]; other site 643562001161 G-X-G motif; other site 643562001162 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; cl17432 643562001163 membrane-bound complex binding site; other site 643562001164 Protein of unknown function (DUF1007); Region: DUF1007; cl01487 643562001165 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 643562001166 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 643562001167 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 643562001168 PilZ domain; Region: PilZ; pfam07238 643562001169 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 643562001170 PIN domain; Region: PIN_Smg5-Smg6-like; cd09880 643562001171 putative active site [active] 643562001172 PhoH-like protein; Region: PhoH; pfam02562 643562001173 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 643562001174 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 643562001175 putative MPT binding site; other site 643562001176 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 643562001177 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 643562001178 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 643562001179 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 643562001180 RsbT co-antagonist protein rsbRD N-terminal domain; Region: RsbRD_N; pfam14361 643562001181 PAS fold; Region: PAS; pfam00989 643562001182 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 643562001183 PAS domain; Region: PAS_9; pfam13426 643562001184 putative active site [active] 643562001185 heme pocket [chemical binding]; other site 643562001186 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 643562001187 PAS domain; Region: PAS_9; pfam13426 643562001188 putative active site [active] 643562001189 heme pocket [chemical binding]; other site 643562001190 PAS domain S-box; Region: sensory_box; TIGR00229 643562001191 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 643562001192 putative active site [active] 643562001193 heme pocket [chemical binding]; other site 643562001194 PAS domain S-box; Region: sensory_box; TIGR00229 643562001195 PAS domain; Region: PAS_8; pfam13188 643562001196 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 643562001197 putative active site [active] 643562001198 heme pocket [chemical binding]; other site 643562001199 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643562001200 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643562001201 metal binding site [ion binding]; metal-binding site 643562001202 active site 643562001203 I-site; other site 643562001204 Predicted membrane protein (DUF2318); Region: DUF2318; pfam10080 643562001205 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 643562001206 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 643562001207 FtsX-like permease family; Region: FtsX; pfam02687 643562001208 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 643562001209 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 643562001210 Walker A/P-loop; other site 643562001211 ATP binding site [chemical binding]; other site 643562001212 Q-loop/lid; other site 643562001213 ABC transporter signature motif; other site 643562001214 Walker B; other site 643562001215 D-loop; other site 643562001216 H-loop/switch region; other site 643562001217 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 643562001218 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 643562001219 active site 643562001220 DNA binding site [nucleotide binding] 643562001221 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 643562001222 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 643562001223 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 643562001224 Catalytic site [active] 643562001225 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 643562001226 Helix-turn-helix domain; Region: HTH_18; pfam12833 643562001227 Secreted protein acidic and rich in cysteine Ca binding region; Region: SPARC_Ca_bdg; pfam10591 643562001228 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 643562001229 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 643562001230 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 643562001231 diphosphate--fructose-6-phosphate 1-phosphotransferase; Provisional; Region: PRK06830 643562001232 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 643562001233 active site 643562001234 ADP/pyrophosphate binding site [chemical binding]; other site 643562001235 dimerization interface [polypeptide binding]; other site 643562001236 allosteric effector site; other site 643562001237 fructose-1,6-bisphosphate binding site; other site 643562001238 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 643562001239 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 643562001240 putative dimer interface [polypeptide binding]; other site 643562001241 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 643562001242 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 643562001243 substrate binding pocket [chemical binding]; other site 643562001244 membrane-bound complex binding site; other site 643562001245 hinge residues; other site 643562001246 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 643562001247 Transposase; Region: DDE_Tnp_ISL3; pfam01610 643562001248 Dihaem cytochrome c; Region: DHC; pfam09626 643562001249 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 643562001250 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 643562001251 putative active site [active] 643562001252 putative metal binding site [ion binding]; other site 643562001253 Peptidase family M48; Region: Peptidase_M48; cl12018 643562001254 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 643562001255 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 643562001256 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 643562001257 protein binding site [polypeptide binding]; other site 643562001258 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 643562001259 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 643562001260 S-adenosylmethionine binding site [chemical binding]; other site 643562001261 Propionate catabolism activator; Region: PrpR_N; pfam06506 643562001262 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 643562001263 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 643562001264 Walker A motif; other site 643562001265 ATP binding site [chemical binding]; other site 643562001266 Walker B motif; other site 643562001267 arginine finger; other site 643562001268 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 643562001269 D-galactonate transporter; Region: 2A0114; TIGR00893 643562001270 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 643562001271 putative substrate translocation pore; other site 643562001272 Domain of unknown function (DUF362); Region: DUF362; pfam04015 643562001273 Tripartite tricarboxylate transporter TctA family; Region: TctA; pfam01970 643562001274 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 643562001275 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 643562001276 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; cl17802 643562001277 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 643562001278 Predicted helicase [General function prediction only]; Region: COG4889 643562001279 Restriction endonuclease; Region: Mrr_cat_2; pfam13156 643562001280 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 643562001281 ATP binding site [chemical binding]; other site 643562001282 putative Mg++ binding site [ion binding]; other site 643562001283 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 643562001284 nucleotide binding region [chemical binding]; other site 643562001285 ATP-binding site [chemical binding]; other site 643562001286 Homeodomain-like domain; Region: HTH_23; pfam13384 643562001287 Winged helix-turn helix; Region: HTH_29; pfam13551 643562001288 Glycosyltransferase like family 2; Region: Glyco_tranf_2_2; pfam10111 643562001289 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 643562001290 active site 643562001291 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 643562001292 tungsten cofactor oxidoreducase radical SAM maturase; Region: W_rSAM_matur; TIGR04317 643562001293 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 643562001294 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 643562001295 Radical SAM superfamily; Region: Radical_SAM; pfam04055 643562001296 FeS/SAM binding site; other site 643562001297 Fic/DOC family; Region: Fic; cl00960 643562001298 VbhA antitoxin and related proteins; Region: VbhA_like; cd11586 643562001299 FIC domain binding interface [polypeptide binding]; other site 643562001300 Transposase domain (DUF772); Region: DUF772; pfam05598 643562001301 B12 binding domain; Region: B12-binding; pfam02310 643562001302 B12 binding site [chemical binding]; other site 643562001303 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 643562001304 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 643562001305 FeS/SAM binding site; other site 643562001306 AAA domain; Region: AAA_28; pfam13521 643562001307 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 643562001308 Zn2+ binding site [ion binding]; other site 643562001309 Mg2+ binding site [ion binding]; other site 643562001310 putative transposase OrfB; Reviewed; Region: PHA02517 643562001311 HTH-like domain; Region: HTH_21; pfam13276 643562001312 Integrase core domain; Region: rve; pfam00665 643562001313 Integrase core domain; Region: rve_3; pfam13683 643562001314 Transposase; Region: HTH_Tnp_1; cl17663 643562001315 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 643562001316 active site 643562001317 DNA binding site [nucleotide binding] 643562001318 Int/Topo IB signature motif; other site 643562001319 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 643562001320 active site 643562001321 Int/Topo IB signature motif; other site 643562001322 catalytic residues [active] 643562001323 DNA binding site [nucleotide binding] 643562001324 Helix-turn-helix domain; Region: HTH_17; cl17695 643562001325 Helix-turn-helix domain; Region: HTH_38; pfam13936 643562001326 DNA polymerase, archaeal type II, large subunit; Region: polC; TIGR00354 643562001327 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 643562001328 active site 643562001329 metal binding site [ion binding]; metal-binding site 643562001330 interdomain interaction site; other site 643562001331 Restriction alleviation protein Lar; Region: Lar_restr_allev; cl08047 643562001332 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 643562001333 YcfA-like protein; Region: YcfA; pfam07927 643562001334 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 643562001335 Dimer interface [polypeptide binding]; other site 643562001336 BRCT sequence motif; other site 643562001337 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 643562001338 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 643562001339 Phage-related protein [Function unknown]; Region: COG4695; cl01923 643562001340 Phage portal protein; Region: Phage_portal; pfam04860 643562001341 terminase ATPase subunit; Provisional; Region: P; PHA02535 643562001342 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 643562001343 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 643562001344 Phage capsid scaffolding protein (GPO) serine peptidase; Region: Phage_GPO; cl15838 643562001345 Phage major capsid protein, P2 family; Region: Phage_cap_P2; cl04947 643562001346 Phage small terminase subunit; Region: Phage_term_smal; pfam05944 643562001347 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 643562001348 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 643562001349 Protein of unknown function (DUF2586); Region: DUF2586; pfam10758 643562001350 Protein of unknown function (DUF2597); Region: DUF2597; pfam10772 643562001351 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 643562001352 Protein of unknown function (DUF2765); Region: DUF2765; pfam10963 643562001353 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 643562001354 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 643562001355 non-specific DNA binding site [nucleotide binding]; other site 643562001356 salt bridge; other site 643562001357 sequence-specific DNA binding site [nucleotide binding]; other site 643562001358 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 643562001359 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 643562001360 Protein of unknown function (DUF2590); Region: DUF2590; pfam10761 643562001361 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 643562001362 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 643562001363 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 643562001364 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 643562001365 DNA-binding interface [nucleotide binding]; DNA binding site 643562001366 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 643562001367 HTH-like domain; Region: HTH_21; pfam13276 643562001368 Integrase core domain; Region: rve; pfam00665 643562001369 Integrase core domain; Region: rve_3; pfam13683 643562001370 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 643562001371 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 643562001372 sequence-specific DNA binding site [nucleotide binding]; other site 643562001373 salt bridge; other site 643562001374 CHC2 zinc finger; Region: zf-CHC2; cl17510 643562001375 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 643562001376 active site 643562001377 DNA binding site [nucleotide binding] 643562001378 Int/Topo IB signature motif; other site 643562001379 Helix-turn-helix domain; Region: HTH_17; pfam12728 643562001380 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 643562001381 Phage integrase family; Region: Phage_integrase; pfam00589 643562001382 active site 643562001383 Int/Topo IB signature motif; other site 643562001384 DNA binding site [nucleotide binding] 643562001385 Predicted transcriptional regulator [Transcription]; Region: COG3905 643562001386 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 643562001387 Fic family protein [Function unknown]; Region: COG3177 643562001388 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 643562001389 Fic/DOC family; Region: Fic; pfam02661 643562001390 Fic/DOC family; Region: Fic; cl00960 643562001391 DNA phosphorothioation-associated DGQHR protein 1; Region: DGQHR_dnd_1; TIGR04172 643562001392 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 643562001393 DNA-binding interface [nucleotide binding]; DNA binding site 643562001394 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 643562001395 YwiC-like protein; Region: YwiC; pfam14256 643562001396 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 643562001397 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 643562001398 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 643562001399 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 643562001400 dimerization interface [polypeptide binding]; other site 643562001401 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 643562001402 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643562001403 dimer interface [polypeptide binding]; other site 643562001404 putative CheW interface [polypeptide binding]; other site 643562001405 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 643562001406 nucleotide binding site [chemical binding]; other site 643562001407 Type III pantothenate kinase; Region: Pan_kinase; cl17198 643562001408 intracellular protease, PfpI family; Region: PfpI; TIGR01382 643562001409 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 643562001410 conserved cys residue [active] 643562001411 enolase; Provisional; Region: eno; PRK00077 643562001412 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 643562001413 dimer interface [polypeptide binding]; other site 643562001414 metal binding site [ion binding]; metal-binding site 643562001415 substrate binding pocket [chemical binding]; other site 643562001416 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 643562001417 putative DNA binding site [nucleotide binding]; other site 643562001418 dimerization interface [polypeptide binding]; other site 643562001419 putative Zn2+ binding site [ion binding]; other site 643562001420 Predicted permease; Region: DUF318; cl17795 643562001421 Predicted permease; Region: DUF318; cl17795 643562001422 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 643562001423 DGC domain; Region: DGC; pfam08859 643562001424 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 643562001425 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 643562001426 catalytic residues [active] 643562001427 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 643562001428 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 643562001429 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 643562001430 active site residue [active] 643562001431 Methylamine utilisation protein MauE; Region: MauE; pfam07291 643562001432 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14184 643562001433 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 643562001434 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 643562001435 homodimer interface [polypeptide binding]; other site 643562001436 NADP binding site [chemical binding]; other site 643562001437 substrate binding site [chemical binding]; other site 643562001438 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 643562001439 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 643562001440 NAD(P) binding site [chemical binding]; other site 643562001441 active site 643562001442 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 643562001443 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 643562001444 Zn2+ binding site [ion binding]; other site 643562001445 Mg2+ binding site [ion binding]; other site 643562001446 Cupin domain; Region: Cupin_2; cl17218 643562001447 Cupin domain; Region: Cupin_2; cl17218 643562001448 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 643562001449 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 643562001450 CHASE domain; Region: CHASE; cl01369 643562001451 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 643562001452 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 643562001453 putative active site [active] 643562001454 heme pocket [chemical binding]; other site 643562001455 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 643562001456 putative active site [active] 643562001457 heme pocket [chemical binding]; other site 643562001458 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 643562001459 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 643562001460 dimer interface [polypeptide binding]; other site 643562001461 phosphorylation site [posttranslational modification] 643562001462 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 643562001463 ATP binding site [chemical binding]; other site 643562001464 G-X-G motif; other site 643562001465 Bacterial SH3 domain; Region: SH3_3; cl17532 643562001466 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 643562001467 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 643562001468 NAD(P)H:flavin oxidoreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_1; cd02150 643562001469 putative FMN binding site [chemical binding]; other site 643562001470 Predicted transcriptional regulators [Transcription]; Region: COG1733 643562001471 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 643562001472 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 643562001473 dimer interface [polypeptide binding]; other site 643562001474 phosphorylation site [posttranslational modification] 643562001475 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 643562001476 ATP binding site [chemical binding]; other site 643562001477 Mg2+ binding site [ion binding]; other site 643562001478 G-X-G motif; other site 643562001479 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 643562001480 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 643562001481 Response regulator receiver domain; Region: Response_reg; pfam00072 643562001482 active site 643562001483 phosphorylation site [posttranslational modification] 643562001484 intermolecular recognition site; other site 643562001485 dimerization interface [polypeptide binding]; other site 643562001486 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 643562001487 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 643562001488 substrate binding pocket [chemical binding]; other site 643562001489 membrane-bound complex binding site; other site 643562001490 hinge residues; other site 643562001491 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 643562001492 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 643562001493 substrate binding pocket [chemical binding]; other site 643562001494 membrane-bound complex binding site; other site 643562001495 hinge residues; other site 643562001496 The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible...; Region: CooC; cd02034 643562001497 P-loop; other site 643562001498 Carbon monoxide dehydrogenase (CODH) is found in acetogenic and methanogenic organisms and is responsible for the synthesis and breakdown of acetyl-CoA, respectively. CODH has two types of metal clusters, a cubane [Fe4-S4] center (B-cluster) similar to...; Region: CODH; cd01915 643562001499 ACS interaction site; other site 643562001500 CODH interaction site; other site 643562001501 Prismane/CO dehydrogenase family; Region: Prismane; pfam03063 643562001502 cubane metal cluster (B-cluster) [ion binding]; other site 643562001503 Ni-Fe-S cluster (C-cluster) [ion binding]; other site 643562001504 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 643562001505 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 643562001506 ligand binding site [chemical binding]; other site 643562001507 flexible hinge region; other site 643562001508 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 643562001509 non-specific DNA interactions [nucleotide binding]; other site 643562001510 DNA binding site [nucleotide binding] 643562001511 sequence specific DNA binding site [nucleotide binding]; other site 643562001512 putative cAMP binding site [chemical binding]; other site 643562001513 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 643562001514 S-adenosylmethionine binding site [chemical binding]; other site 643562001515 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 643562001516 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 643562001517 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 643562001518 putative active site [active] 643562001519 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 643562001520 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 643562001521 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 643562001522 RNA polymerase sigma factor; Reviewed; Region: PRK05602 643562001523 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 643562001524 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 643562001525 DNA binding residues [nucleotide binding] 643562001526 Putative zinc-finger; Region: zf-HC2; pfam13490 643562001527 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 643562001528 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 643562001529 Walker A/P-loop; other site 643562001530 ATP binding site [chemical binding]; other site 643562001531 Q-loop/lid; other site 643562001532 ABC transporter signature motif; other site 643562001533 Walker B; other site 643562001534 D-loop; other site 643562001535 H-loop/switch region; other site 643562001536 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 643562001537 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 643562001538 FtsX-like permease family; Region: FtsX; pfam02687 643562001539 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 643562001540 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 643562001541 acyl-activating enzyme (AAE) consensus motif; other site 643562001542 AMP binding site [chemical binding]; other site 643562001543 active site 643562001544 CoA binding site [chemical binding]; other site 643562001545 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 643562001546 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 643562001547 non-specific DNA binding site [nucleotide binding]; other site 643562001548 salt bridge; other site 643562001549 sequence-specific DNA binding site [nucleotide binding]; other site 643562001550 Cupin domain; Region: Cupin_2; pfam07883 643562001551 AMP-binding domain protein; Validated; Region: PRK08315 643562001552 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 643562001553 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 643562001554 acyl-activating enzyme (AAE) consensus motif; other site 643562001555 putative AMP binding site [chemical binding]; other site 643562001556 putative active site [active] 643562001557 putative CoA binding site [chemical binding]; other site 643562001558 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 643562001559 non-specific DNA binding site [nucleotide binding]; other site 643562001560 salt bridge; other site 643562001561 sequence-specific DNA binding site [nucleotide binding]; other site 643562001562 Cupin domain; Region: Cupin_2; pfam07883 643562001563 Tetratricopeptide repeat; Region: TPR_12; pfam13424 643562001564 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 643562001565 binding surface 643562001566 TPR motif; other site 643562001567 TPR repeat; Region: TPR_11; pfam13414 643562001568 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 643562001569 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 643562001570 Walker A/P-loop; other site 643562001571 ATP binding site [chemical binding]; other site 643562001572 Q-loop/lid; other site 643562001573 ABC transporter signature motif; other site 643562001574 Walker B; other site 643562001575 D-loop; other site 643562001576 H-loop/switch region; other site 643562001577 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 643562001578 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 643562001579 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 643562001580 active site 643562001581 phosphorylation site [posttranslational modification] 643562001582 intermolecular recognition site; other site 643562001583 dimerization interface [polypeptide binding]; other site 643562001584 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 643562001585 Walker A motif; other site 643562001586 ATP binding site [chemical binding]; other site 643562001587 Walker B motif; other site 643562001588 arginine finger; other site 643562001589 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 643562001590 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 643562001591 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 643562001592 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 643562001593 putative active site [active] 643562001594 heme pocket [chemical binding]; other site 643562001595 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 643562001596 dimer interface [polypeptide binding]; other site 643562001597 phosphorylation site [posttranslational modification] 643562001598 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 643562001599 ATP binding site [chemical binding]; other site 643562001600 Mg2+ binding site [ion binding]; other site 643562001601 G-X-G motif; other site 643562001602 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 643562001603 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 643562001604 active site 643562001605 phosphorylation site [posttranslational modification] 643562001606 intermolecular recognition site; other site 643562001607 dimerization interface [polypeptide binding]; other site 643562001608 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 643562001609 putative active site [active] 643562001610 putative metal binding site [ion binding]; other site 643562001611 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 643562001612 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 643562001613 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 643562001614 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 643562001615 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 643562001616 active site 643562001617 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 643562001618 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 643562001619 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; cl17173 643562001620 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 643562001621 anti sigma factor interaction site; other site 643562001622 regulatory phosphorylation site [posttranslational modification]; other site 643562001623 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 643562001624 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 643562001625 ATP binding site [chemical binding]; other site 643562001626 Mg2+ binding site [ion binding]; other site 643562001627 G-X-G motif; other site 643562001628 Cache domain; Region: Cache_1; pfam02743 643562001629 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 643562001630 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 643562001631 dimerization interface [polypeptide binding]; other site 643562001632 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 643562001633 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 643562001634 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 643562001635 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 643562001636 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 643562001637 Walker A/P-loop; other site 643562001638 ATP binding site [chemical binding]; other site 643562001639 Q-loop/lid; other site 643562001640 ABC transporter; Region: ABC_tran; pfam00005 643562001641 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 643562001642 ABC transporter signature motif; other site 643562001643 Walker B; other site 643562001644 D-loop; other site 643562001645 H-loop/switch region; other site 643562001646 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 643562001647 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 643562001648 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 643562001649 active site 643562001650 catalytic residues [active] 643562001651 DNA binding site [nucleotide binding] 643562001652 Int/Topo IB signature motif; other site 643562001653 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 643562001654 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 643562001655 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 643562001656 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 643562001657 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 643562001658 Walker A/P-loop; other site 643562001659 ATP binding site [chemical binding]; other site 643562001660 Q-loop/lid; other site 643562001661 ABC transporter signature motif; other site 643562001662 Walker B; other site 643562001663 D-loop; other site 643562001664 H-loop/switch region; other site 643562001665 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 643562001666 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 643562001667 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 643562001668 Walker A/P-loop; other site 643562001669 ATP binding site [chemical binding]; other site 643562001670 Q-loop/lid; other site 643562001671 ABC transporter signature motif; other site 643562001672 Walker B; other site 643562001673 D-loop; other site 643562001674 H-loop/switch region; other site 643562001675 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 643562001676 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 643562001677 N-terminal plug; other site 643562001678 ligand-binding site [chemical binding]; other site 643562001679 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 643562001680 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 643562001681 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 643562001682 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 643562001683 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 643562001684 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 643562001685 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 643562001686 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 643562001687 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 643562001688 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 643562001689 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 643562001690 binding surface 643562001691 TPR motif; other site 643562001692 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 643562001693 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 643562001694 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 643562001695 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 643562001696 Walker A/P-loop; other site 643562001697 ATP binding site [chemical binding]; other site 643562001698 Q-loop/lid; other site 643562001699 ABC transporter signature motif; other site 643562001700 Walker B; other site 643562001701 D-loop; other site 643562001702 H-loop/switch region; other site 643562001703 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 643562001704 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 643562001705 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 643562001706 N-terminal plug; other site 643562001707 ligand-binding site [chemical binding]; other site 643562001708 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 643562001709 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 643562001710 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 643562001711 Walker A/P-loop; other site 643562001712 ATP binding site [chemical binding]; other site 643562001713 Q-loop/lid; other site 643562001714 ABC transporter signature motif; other site 643562001715 Walker B; other site 643562001716 H-loop/switch region; other site 643562001717 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 643562001718 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 643562001719 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 643562001720 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 643562001721 putative substrate translocation pore; other site 643562001722 Transcriptional regulators [Transcription]; Region: MarR; COG1846 643562001723 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 643562001724 putative DNA binding site [nucleotide binding]; other site 643562001725 putative Zn2+ binding site [ion binding]; other site 643562001726 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 643562001727 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 643562001728 G1 box; other site 643562001729 GTP/Mg2+ binding site [chemical binding]; other site 643562001730 Switch I region; other site 643562001731 G2 box; other site 643562001732 Switch II region; other site 643562001733 G3 box; other site 643562001734 G4 box; other site 643562001735 G5 box; other site 643562001736 biotin synthase; Provisional; Region: PRK07094 643562001737 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 643562001738 FeS/SAM binding site; other site 643562001739 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 643562001740 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 643562001741 Aspartase; Region: Aspartase; cd01357 643562001742 active sites [active] 643562001743 tetramer interface [polypeptide binding]; other site 643562001744 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09613 643562001745 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 643562001746 FeS/SAM binding site; other site 643562001747 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 643562001748 putative iron-only hydrogenase system regulator; Region: hyd_TM1266; TIGR03959 643562001749 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 643562001750 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; smart00902 643562001751 4Fe-4S binding domain; Region: Fer4; pfam00037 643562001752 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 643562001753 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 643562001754 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 643562001755 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 643562001756 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 643562001757 Transcriptional regulator [Transcription]; Region: LysR; COG0583 643562001758 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643562001759 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 643562001760 dimerization interface [polypeptide binding]; other site 643562001761 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u4; cd10928 643562001762 NodB motif; other site 643562001763 putative active site [active] 643562001764 putative catalytic site [active] 643562001765 putative Zn binding site [ion binding]; other site 643562001766 FtsX-like permease family; Region: FtsX; pfam02687 643562001767 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 643562001768 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 643562001769 Walker A/P-loop; other site 643562001770 ATP binding site [chemical binding]; other site 643562001771 Q-loop/lid; other site 643562001772 ABC transporter signature motif; other site 643562001773 Walker B; other site 643562001774 D-loop; other site 643562001775 H-loop/switch region; other site 643562001776 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cl08238 643562001777 PA/protease or protease-like domain interface [polypeptide binding]; other site 643562001778 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 643562001779 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 643562001780 hypothetical protein; Validated; Region: PRK07668 643562001781 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 643562001782 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643562001783 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643562001784 metal binding site [ion binding]; metal-binding site 643562001785 active site 643562001786 I-site; other site 643562001787 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 643562001788 putative active site [active] 643562001789 dimerization interface [polypeptide binding]; other site 643562001790 putative tRNAtyr binding site [nucleotide binding]; other site 643562001791 Protein of unknown function, DUF270; Region: Otopetrin; pfam03189 643562001792 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 643562001793 active site 643562001794 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in mouse RS21-C6 protein and its homologs; Region: NTP-PPase_RS21-C6_like; cd11537 643562001795 homodimer interface [polypeptide binding]; other site 643562001796 chemical substrate binding site [chemical binding]; other site 643562001797 oligomer interface [polypeptide binding]; other site 643562001798 metal binding site [ion binding]; metal-binding site 643562001799 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 643562001800 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 643562001801 active site 643562001802 PHP Thumb interface [polypeptide binding]; other site 643562001803 metal binding site [ion binding]; metal-binding site 643562001804 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 643562001805 generic binding surface II; other site 643562001806 generic binding surface I; other site 643562001807 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; cl17221 643562001808 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; cl17221 643562001809 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 643562001810 Cache domain; Region: Cache_1; pfam02743 643562001811 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 643562001812 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 643562001813 dimer interface [polypeptide binding]; other site 643562001814 phosphorylation site [posttranslational modification] 643562001815 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 643562001816 ATP binding site [chemical binding]; other site 643562001817 Mg2+ binding site [ion binding]; other site 643562001818 G-X-G motif; other site 643562001819 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 643562001820 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 643562001821 active site 643562001822 phosphorylation site [posttranslational modification] 643562001823 intermolecular recognition site; other site 643562001824 dimerization interface [polypeptide binding]; other site 643562001825 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 643562001826 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 643562001827 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 643562001828 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 643562001829 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 643562001830 G1 box; other site 643562001831 putative GEF interaction site [polypeptide binding]; other site 643562001832 GTP/Mg2+ binding site [chemical binding]; other site 643562001833 Switch I region; other site 643562001834 G2 box; other site 643562001835 G3 box; other site 643562001836 Switch II region; other site 643562001837 G4 box; other site 643562001838 G5 box; other site 643562001839 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 643562001840 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 643562001841 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 643562001842 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 643562001843 ATP binding site [chemical binding]; other site 643562001844 Mg2+ binding site [ion binding]; other site 643562001845 G-X-G motif; other site 643562001846 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 643562001847 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 643562001848 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 643562001849 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 643562001850 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 643562001851 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 643562001852 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 643562001853 HTH-like domain; Region: HTH_21; pfam13276 643562001854 Integrase core domain; Region: rve; pfam00665 643562001855 Integrase core domain; Region: rve_3; pfam13683 643562001856 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 643562001857 DNA-binding interface [nucleotide binding]; DNA binding site 643562001858 haemagglutination activity domain; Region: Haemagg_act; pfam05860 643562001859 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 643562001860 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 643562001861 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 643562001862 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 643562001863 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 643562001864 active site 643562001865 phosphorylation site [posttranslational modification] 643562001866 intermolecular recognition site; other site 643562001867 dimerization interface [polypeptide binding]; other site 643562001868 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 643562001869 DNA binding residues [nucleotide binding] 643562001870 dimerization interface [polypeptide binding]; other site 643562001871 Protein of unknown function (DUF3100); Region: DUF3100; pfam11299 643562001872 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 643562001873 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 643562001874 metal binding site [ion binding]; metal-binding site 643562001875 putative dimer interface [polypeptide binding]; other site 643562001876 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 643562001877 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 643562001878 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 643562001879 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 643562001880 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 643562001881 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 643562001882 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 643562001883 Walker A/P-loop; other site 643562001884 ATP binding site [chemical binding]; other site 643562001885 Q-loop/lid; other site 643562001886 ABC transporter signature motif; other site 643562001887 Walker B; other site 643562001888 D-loop; other site 643562001889 H-loop/switch region; other site 643562001890 TOBE domain; Region: TOBE_2; pfam08402 643562001891 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 643562001892 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 643562001893 active site 643562001894 metal binding site [ion binding]; metal-binding site 643562001895 hexamer interface [polypeptide binding]; other site 643562001896 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 643562001897 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643562001898 dimer interface [polypeptide binding]; other site 643562001899 conserved gate region; other site 643562001900 putative PBP binding loops; other site 643562001901 ABC-ATPase subunit interface; other site 643562001902 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643562001903 dimer interface [polypeptide binding]; other site 643562001904 conserved gate region; other site 643562001905 putative PBP binding loops; other site 643562001906 ABC-ATPase subunit interface; other site 643562001907 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 643562001908 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 643562001909 active site 643562001910 motif I; other site 643562001911 motif II; other site 643562001912 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 643562001913 Glycerol-3-phosphate responsive antiterminator; Region: G3P_antiterm; cl00852 643562001914 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 643562001915 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 643562001916 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 643562001917 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 643562001918 substrate binding pocket [chemical binding]; other site 643562001919 membrane-bound complex binding site; other site 643562001920 hinge residues; other site 643562001921 Cache domain; Region: Cache_1; pfam02743 643562001922 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 643562001923 dimerization interface [polypeptide binding]; other site 643562001924 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 643562001925 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 643562001926 Cache domain; Region: Cache_1; pfam02743 643562001927 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 643562001928 dimerization interface [polypeptide binding]; other site 643562001929 PAS domain; Region: PAS_9; pfam13426 643562001930 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 643562001931 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643562001932 dimer interface [polypeptide binding]; other site 643562001933 putative CheW interface [polypeptide binding]; other site 643562001934 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 643562001935 Catalytic site; other site 643562001936 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 643562001937 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 643562001938 active site 643562001939 homotetramer interface [polypeptide binding]; other site 643562001940 homodimer interface [polypeptide binding]; other site 643562001941 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 643562001942 [Protein-PII] uridylyltransferase; Region: UTase_glnD; TIGR01693 643562001943 metal binding triad; other site 643562001944 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 643562001945 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cl17503 643562001946 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 643562001947 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 643562001948 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 643562001949 Nitrogen regulatory protein P-II; Region: P-II; smart00938 643562001950 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 643562001951 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 643562001952 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_1; cd04870 643562001953 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_2; cd04871 643562001954 phosphoserine phosphatase SerB; Region: serB; TIGR00338 643562001955 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 643562001956 motif II; other site 643562001957 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 643562001958 Mechanosensitive ion channel; Region: MS_channel; pfam00924 643562001959 Thermotoga maritima CorA_like subfamily; Region: TmCorA-like_1; cd12828 643562001960 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 643562001961 oligomer interface [polypeptide binding]; other site 643562001962 metal binding site [ion binding]; metal-binding site 643562001963 metal binding site [ion binding]; metal-binding site 643562001964 Cl binding site [ion binding]; other site 643562001965 aspartate ring; other site 643562001966 basic sphincter; other site 643562001967 putative hydrophobic gate; other site 643562001968 periplasmic entrance; other site 643562001969 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 643562001970 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 643562001971 ATP binding site [chemical binding]; other site 643562001972 Mg2+ binding site [ion binding]; other site 643562001973 G-X-G motif; other site 643562001974 LysE type translocator; Region: LysE; cl00565 643562001975 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 643562001976 acetyl-CoA synthetase; Provisional; Region: PRK00174 643562001977 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 643562001978 active site 643562001979 CoA binding site [chemical binding]; other site 643562001980 acyl-activating enzyme (AAE) consensus motif; other site 643562001981 AMP binding site [chemical binding]; other site 643562001982 acetate binding site [chemical binding]; other site 643562001983 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 643562001984 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 643562001985 active site 643562001986 phosphorylation site [posttranslational modification] 643562001987 intermolecular recognition site; other site 643562001988 LytTr DNA-binding domain; Region: LytTR; smart00850 643562001989 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 643562001990 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 643562001991 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 643562001992 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 643562001993 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 643562001994 Protein of unknown function (DUF554); Region: DUF554; pfam04474 643562001995 Predicted permeases [General function prediction only]; Region: COG0679 643562001996 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 643562001997 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 643562001998 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 643562001999 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 643562002000 Nucleoside recognition; Region: Gate; pfam07670 643562002001 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 643562002002 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 643562002003 Major Facilitator Superfamily; Region: MFS_1; pfam07690 643562002004 putative substrate translocation pore; other site 643562002005 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 643562002006 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 643562002007 HEAT repeats; Region: HEAT_2; pfam13646 643562002008 HEAT repeats; Region: HEAT_2; pfam13646 643562002009 HEAT repeats; Region: HEAT_2; pfam13646 643562002010 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 643562002011 Response regulator receiver domain; Region: Response_reg; pfam00072 643562002012 active site 643562002013 phosphorylation site [posttranslational modification] 643562002014 intermolecular recognition site; other site 643562002015 dimerization interface [polypeptide binding]; other site 643562002016 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 643562002017 PGAP1-like protein; Region: PGAP1; pfam07819 643562002018 Putative pyruvate format-lyase activating enzyme (DUF1786); Region: DUF1786; cl01638 643562002019 AsmA family; Region: AsmA; pfam05170 643562002020 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 643562002021 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 643562002022 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 643562002023 Amidinotransferase; Region: Amidinotransf; cl12043 643562002024 PAS domain S-box; Region: sensory_box; TIGR00229 643562002025 GAF domain; Region: GAF_2; pfam13185 643562002026 GAF domain; Region: GAF; cl17456 643562002027 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 643562002028 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 643562002029 putative active site [active] 643562002030 heme pocket [chemical binding]; other site 643562002031 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 643562002032 ATP binding site [chemical binding]; other site 643562002033 Mg2+ binding site [ion binding]; other site 643562002034 G-X-G motif; other site 643562002035 Methyltransferase domain; Region: Methyltransf_24; pfam13578 643562002036 aspartate aminotransferase; Provisional; Region: PRK06836 643562002037 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 643562002038 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643562002039 homodimer interface [polypeptide binding]; other site 643562002040 catalytic residue [active] 643562002041 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 643562002042 tandem repeat interface [polypeptide binding]; other site 643562002043 oligomer interface [polypeptide binding]; other site 643562002044 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 643562002045 active site residues [active] 643562002046 cobalamin synthase; Reviewed; Region: cobS; PRK00235 643562002047 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 643562002048 Uncharacterized conserved protein [Function unknown]; Region: COG1284 643562002049 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 643562002050 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 643562002051 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 643562002052 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 643562002053 Ligand Binding Site [chemical binding]; other site 643562002054 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 643562002055 HTH-like domain; Region: HTH_21; pfam13276 643562002056 Integrase core domain; Region: rve; pfam00665 643562002057 Integrase core domain; Region: rve_3; pfam13683 643562002058 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 643562002059 DNA-binding interface [nucleotide binding]; DNA binding site 643562002060 Methyltransferase domain; Region: Methyltransf_23; pfam13489 643562002061 Methyltransferase domain; Region: Methyltransf_12; pfam08242 643562002062 Methyltransferase domain; Region: Methyltransf_23; pfam13489 643562002063 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 643562002064 S-adenosylmethionine binding site [chemical binding]; other site 643562002065 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 643562002066 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 643562002067 active site 643562002068 dimer interface [polypeptide binding]; other site 643562002069 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 643562002070 Ligand Binding Site [chemical binding]; other site 643562002071 Molecular Tunnel; other site 643562002072 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 643562002073 S-adenosylmethionine binding site [chemical binding]; other site 643562002074 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 643562002075 Ligand binding site; other site 643562002076 Putative Catalytic site; other site 643562002077 DXD motif; other site 643562002078 hopanoid biosynthesis associated radical SAM protein HpnJ; Region: HpnJ; TIGR03471 643562002079 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 643562002080 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 643562002081 FeS/SAM binding site; other site 643562002082 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 643562002083 putative DNA binding site [nucleotide binding]; other site 643562002084 dimerization interface [polypeptide binding]; other site 643562002085 putative Zn2+ binding site [ion binding]; other site 643562002086 Proline dehydrogenase; Region: Pro_dh; cl03282 643562002087 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 643562002088 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 643562002089 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 643562002090 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 643562002091 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 643562002092 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 643562002093 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 643562002094 Walker A/P-loop; other site 643562002095 ATP binding site [chemical binding]; other site 643562002096 Q-loop/lid; other site 643562002097 ABC transporter signature motif; other site 643562002098 Walker B; other site 643562002099 D-loop; other site 643562002100 H-loop/switch region; other site 643562002101 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 643562002102 B12 binding domain; Region: B12-binding; pfam02310 643562002103 B12 binding site [chemical binding]; other site 643562002104 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 643562002105 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 643562002106 FeS/SAM binding site; other site 643562002107 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 643562002108 FeS/SAM binding site; other site 643562002109 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 643562002110 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 643562002111 This family is most closely related to the GT1 family of glycosyltransferases. AmSD in Erwinia amylovora has been shown to be involved in the biosynthesis of amylovoran, the acidic exopolysaccharide acting as a virulence factor. This enzyme may be...; Region: GT1_amsD_like; cd03820 643562002112 putative ADP-binding pocket [chemical binding]; other site 643562002113 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 643562002114 S-adenosylmethionine binding site [chemical binding]; other site 643562002115 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 643562002116 This family is most closely related to the GT1 family of glycosyltransferases. AmSD in Erwinia amylovora has been shown to be involved in the biosynthesis of amylovoran, the acidic exopolysaccharide acting as a virulence factor. This enzyme may be...; Region: GT1_amsD_like; cd03820 643562002117 putative ADP-binding pocket [chemical binding]; other site 643562002118 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 643562002119 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 643562002120 S-adenosylmethionine binding site [chemical binding]; other site 643562002121 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 643562002122 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 643562002123 active site 643562002124 dimer interface [polypeptide binding]; other site 643562002125 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 643562002126 Ligand Binding Site [chemical binding]; other site 643562002127 Molecular Tunnel; other site 643562002128 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 643562002129 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 643562002130 active site 643562002131 dimer interface [polypeptide binding]; other site 643562002132 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 643562002133 Ligand Binding Site [chemical binding]; other site 643562002134 Molecular Tunnel; other site 643562002135 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 643562002136 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 643562002137 putative ADP-binding pocket [chemical binding]; other site 643562002138 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 643562002139 Competence-damaged protein; Region: CinA; pfam02464 643562002140 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 643562002141 heterotetramer interface [polypeptide binding]; other site 643562002142 active site pocket [active] 643562002143 cleavage site 643562002144 HD domain; Region: HD_3; pfam13023 643562002145 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 643562002146 Permease; Region: Permease; pfam02405 643562002147 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 643562002148 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 643562002149 Walker A/P-loop; other site 643562002150 ATP binding site [chemical binding]; other site 643562002151 Q-loop/lid; other site 643562002152 ABC transporter signature motif; other site 643562002153 Walker B; other site 643562002154 D-loop; other site 643562002155 H-loop/switch region; other site 643562002156 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 643562002157 mce related protein; Region: MCE; pfam02470 643562002158 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 643562002159 VacJ like lipoprotein; Region: VacJ; cl01073 643562002160 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 643562002161 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 643562002162 active site 643562002163 metal binding site [ion binding]; metal-binding site 643562002164 homotetramer interface [polypeptide binding]; other site 643562002165 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 643562002166 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 643562002167 putative ligand binding site [chemical binding]; other site 643562002168 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 643562002169 dimerization interface [polypeptide binding]; other site 643562002170 PAS domain S-box; Region: sensory_box; TIGR00229 643562002171 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 643562002172 putative active site [active] 643562002173 heme pocket [chemical binding]; other site 643562002174 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643562002175 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643562002176 metal binding site [ion binding]; metal-binding site 643562002177 active site 643562002178 I-site; other site 643562002179 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 643562002180 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 643562002181 binding surface 643562002182 TPR motif; other site 643562002183 TPR repeat; Region: TPR_11; pfam13414 643562002184 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 643562002185 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 643562002186 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 643562002187 catalytic triad [active] 643562002188 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 643562002189 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 643562002190 AMMECR1; Region: AMMECR1; pfam01871 643562002191 AmmeMemoRadiSam system protein A; Region: AmmeMemoSam_A; TIGR04335 643562002192 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 643562002193 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 643562002194 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 643562002195 Zn2+ binding site [ion binding]; other site 643562002196 Mg2+ binding site [ion binding]; other site 643562002197 Cysteine-rich small domain; Region: zf-like; cl00946 643562002198 Domain of unknown function (DUF4389); Region: DUF4389; pfam14333 643562002199 Protein of unknown function (DUF342); Region: DUF342; pfam03961 643562002200 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 643562002201 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 643562002202 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 643562002203 HIGH motif; other site 643562002204 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 643562002205 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 643562002206 active site 643562002207 KMSKS motif; other site 643562002208 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 643562002209 tRNA binding surface [nucleotide binding]; other site 643562002210 anticodon binding site; other site 643562002211 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 643562002212 Abi-like protein; Region: Abi_2; pfam07751 643562002213 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 643562002214 active site 643562002215 SAM binding site [chemical binding]; other site 643562002216 homodimer interface [polypeptide binding]; other site 643562002217 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 643562002218 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 643562002219 active site 643562002220 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 643562002221 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 643562002222 active site 643562002223 substrate binding site [chemical binding]; other site 643562002224 cosubstrate binding site; other site 643562002225 catalytic site [active] 643562002226 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 643562002227 atypical (a) SDRs, subgroup 2; Region: SDR_a2; cd05245 643562002228 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 643562002229 putative NAD(P) binding site [chemical binding]; other site 643562002230 putative active site [active] 643562002231 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 643562002232 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 643562002233 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 643562002234 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 643562002235 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 643562002236 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 643562002237 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 643562002238 inhibitor-cofactor binding pocket; inhibition site 643562002239 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643562002240 catalytic residue [active] 643562002241 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 643562002242 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 643562002243 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 643562002244 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 643562002245 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 643562002246 active site 643562002247 SAM binding site [chemical binding]; other site 643562002248 homodimer interface [polypeptide binding]; other site 643562002249 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 643562002250 heme-binding residues [chemical binding]; other site 643562002251 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 643562002252 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 643562002253 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643562002254 homodimer interface [polypeptide binding]; other site 643562002255 catalytic residue [active] 643562002256 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 643562002257 signal recognition particle protein; Provisional; Region: PRK10867 643562002258 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 643562002259 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 643562002260 P loop; other site 643562002261 GTP binding site [chemical binding]; other site 643562002262 Signal peptide binding domain; Region: SRP_SPB; pfam02978 643562002263 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 643562002264 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 643562002265 hypothetical protein; Provisional; Region: PRK00468 643562002266 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 643562002267 RimM N-terminal domain; Region: RimM; pfam01782 643562002268 PRC-barrel domain; Region: PRC; pfam05239 643562002269 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 643562002270 SAM-dependent RNA methyltransferase; Region: Methyltrn_RNA_4; pfam09936 643562002271 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 643562002272 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 643562002273 RNA/DNA hybrid binding site [nucleotide binding]; other site 643562002274 active site 643562002275 Uncharacterized protein family UPF0102; Region: UPF0102; cl00516 643562002276 Predicted methyltransferases [General function prediction only]; Region: COG0313 643562002277 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 643562002278 putative SAM binding site [chemical binding]; other site 643562002279 putative homodimer interface [polypeptide binding]; other site 643562002280 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 643562002281 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 643562002282 BioY family; Region: BioY; pfam02632 643562002283 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 643562002284 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 643562002285 dimerization domain swap beta strand [polypeptide binding]; other site 643562002286 regulatory protein interface [polypeptide binding]; other site 643562002287 active site 643562002288 regulatory phosphorylation site [posttranslational modification]; other site 643562002289 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 643562002290 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 643562002291 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 643562002292 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 643562002293 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 643562002294 SmpB-tmRNA interface; other site 643562002295 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 643562002296 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 643562002297 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 643562002298 active site 643562002299 phosphorylation site [posttranslational modification] 643562002300 intermolecular recognition site; other site 643562002301 dimerization interface [polypeptide binding]; other site 643562002302 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 643562002303 Walker A motif; other site 643562002304 ATP binding site [chemical binding]; other site 643562002305 Walker B motif; other site 643562002306 arginine finger; other site 643562002307 Transposase; Region: HTH_Tnp_1; pfam01527 643562002308 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 643562002309 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 643562002310 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 643562002311 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 643562002312 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 643562002313 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 643562002314 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 643562002315 Response regulator receiver domain; Region: Response_reg; pfam00072 643562002316 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 643562002317 active site 643562002318 phosphorylation site [posttranslational modification] 643562002319 intermolecular recognition site; other site 643562002320 dimerization interface [polypeptide binding]; other site 643562002321 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 643562002322 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 643562002323 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 643562002324 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 643562002325 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 643562002326 Cysteine-rich domain; Region: CCG; pfam02754 643562002327 Cysteine-rich domain; Region: CCG; pfam02754 643562002328 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 643562002329 Ligand Binding Site [chemical binding]; other site 643562002330 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 643562002331 Ligand Binding Site [chemical binding]; other site 643562002332 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 643562002333 Cysteine-rich domain; Region: CCG; pfam02754 643562002334 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 643562002335 heme-binding residues [chemical binding]; other site 643562002336 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 643562002337 Cytochrome c bacterial; Region: Cytochrome_cB; pfam11783 643562002338 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 643562002339 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 643562002340 hydrogenase 2 protein HybA; Provisional; Region: PRK10882 643562002341 4Fe-4S binding domain; Region: Fer4; cl02805 643562002342 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 643562002343 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 643562002344 ligand binding site [chemical binding]; other site 643562002345 flexible hinge region; other site 643562002346 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 643562002347 putative switch regulator; other site 643562002348 non-specific DNA interactions [nucleotide binding]; other site 643562002349 DNA binding site [nucleotide binding] 643562002350 sequence specific DNA binding site [nucleotide binding]; other site 643562002351 putative cAMP binding site [chemical binding]; other site 643562002352 FAD binding domain; Region: FAD_binding_4; pfam01565 643562002353 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 643562002354 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 643562002355 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 643562002356 Cysteine-rich domain; Region: CCG; pfam02754 643562002357 Cysteine-rich domain; Region: CCG; pfam02754 643562002358 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 643562002359 DEAD/DEAH box helicase; Region: DEAD; pfam00270 643562002360 ATP binding site [chemical binding]; other site 643562002361 putative Mg++ binding site [ion binding]; other site 643562002362 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 643562002363 SEC-C motif; Region: SEC-C; pfam02810 643562002364 Protein of unknown function, DUF486; Region: DUF486; cl01236 643562002365 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 643562002366 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 643562002367 S-adenosylmethionine binding site [chemical binding]; other site 643562002368 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 643562002369 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 643562002370 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 643562002371 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 643562002372 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 643562002373 futalosine nucleosidase; Region: fut_nucase; TIGR03664 643562002374 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 643562002375 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 643562002376 substrate binding pocket [chemical binding]; other site 643562002377 chain length determination region; other site 643562002378 substrate-Mg2+ binding site; other site 643562002379 catalytic residues [active] 643562002380 aspartate-rich region 1; other site 643562002381 active site lid residues [active] 643562002382 aspartate-rich region 2; other site 643562002383 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 643562002384 Phosphoribosylformylglycinamidine (FGAM) synthase, synthetase domain [Nucleotide transport and metabolism]; Region: PurL; COG0046 643562002385 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 643562002386 dimerization interface [polypeptide binding]; other site 643562002387 ATP binding site [chemical binding]; other site 643562002388 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 643562002389 dimerization interface [polypeptide binding]; other site 643562002390 ATP binding site [chemical binding]; other site 643562002391 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 643562002392 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 643562002393 dimerization interface [polypeptide binding]; other site 643562002394 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 643562002395 PAS domain; Region: PAS_9; pfam13426 643562002396 putative active site [active] 643562002397 heme pocket [chemical binding]; other site 643562002398 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 643562002399 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643562002400 dimer interface [polypeptide binding]; other site 643562002401 putative CheW interface [polypeptide binding]; other site 643562002402 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 643562002403 metal binding site 2 [ion binding]; metal-binding site 643562002404 putative DNA binding helix; other site 643562002405 metal binding site 1 [ion binding]; metal-binding site 643562002406 dimer interface [polypeptide binding]; other site 643562002407 structural Zn2+ binding site [ion binding]; other site 643562002408 Rubrerythrin [Energy production and conversion]; Region: COG1592 643562002409 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 643562002410 binuclear metal center [ion binding]; other site 643562002411 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 643562002412 iron binding site [ion binding]; other site 643562002413 Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small; Region: DSRD; cd00974 643562002414 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 643562002415 non-heme iron binding site [ion binding]; other site 643562002416 dimer interface [polypeptide binding]; other site 643562002417 Superoxide reductase-like (SORL) domain; present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals as a defense mechanism...; Region: SORL; cl00014 643562002418 non-heme iron binding site [ion binding]; other site 643562002419 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 643562002420 Rubredoxin; Region: Rubredoxin; pfam00301 643562002421 iron binding site [ion binding]; other site 643562002422 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 643562002423 Rubredoxin; Region: Rubredoxin; pfam00301 643562002424 iron binding site [ion binding]; other site 643562002425 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional; Region: PRK11921 643562002426 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 643562002427 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 643562002428 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1671 643562002429 Uncharacterized conserved protein (DUF2196); Region: DUF2196; pfam09962 643562002430 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 643562002431 metal ion-dependent adhesion site (MIDAS); other site 643562002432 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 643562002433 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 643562002434 ligand binding site [chemical binding]; other site 643562002435 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 643562002436 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 643562002437 NADP binding site [chemical binding]; other site 643562002438 homopentamer interface [polypeptide binding]; other site 643562002439 substrate binding site [chemical binding]; other site 643562002440 active site 643562002441 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 643562002442 Organic solvent tolerance protein; Region: OstA_C; pfam04453 643562002443 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 643562002444 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 643562002445 ATP binding site [chemical binding]; other site 643562002446 Mg2+ binding site [ion binding]; other site 643562002447 G-X-G motif; other site 643562002448 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 643562002449 ATP binding site [chemical binding]; other site 643562002450 MutL C terminal dimerisation domain; Region: MutL_C; smart00853 643562002451 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 643562002452 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 643562002453 active site 643562002454 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 643562002455 dimer interface [polypeptide binding]; other site 643562002456 substrate binding site [chemical binding]; other site 643562002457 catalytic residues [active] 643562002458 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 643562002459 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 643562002460 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 643562002461 dimerization interface [polypeptide binding]; other site 643562002462 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 643562002463 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643562002464 dimer interface [polypeptide binding]; other site 643562002465 putative CheW interface [polypeptide binding]; other site 643562002466 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 643562002467 dimerization interface [polypeptide binding]; other site 643562002468 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 643562002469 PAS domain; Region: PAS; smart00091 643562002470 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 643562002471 dimer interface [polypeptide binding]; other site 643562002472 phosphorylation site [posttranslational modification] 643562002473 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 643562002474 ATP binding site [chemical binding]; other site 643562002475 Mg2+ binding site [ion binding]; other site 643562002476 G-X-G motif; other site 643562002477 Phosphate transporter family; Region: PHO4; pfam01384 643562002478 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 643562002479 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 643562002480 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 643562002481 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 643562002482 Zn2+ binding site [ion binding]; other site 643562002483 Mg2+ binding site [ion binding]; other site 643562002484 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 643562002485 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 643562002486 Transposase; Region: DEDD_Tnp_IS110; pfam01548 643562002487 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 643562002488 AIPR protein; Region: AIPR; pfam10592 643562002489 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 643562002490 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 643562002491 tetramer interface [polypeptide binding]; other site 643562002492 heme binding pocket [chemical binding]; other site 643562002493 NADPH binding site [chemical binding]; other site 643562002494 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 643562002495 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 643562002496 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643562002497 homodimer interface [polypeptide binding]; other site 643562002498 catalytic residue [active] 643562002499 cobyric acid synthase; Provisional; Region: PRK00784 643562002500 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 643562002501 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 643562002502 catalytic triad [active] 643562002503 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 643562002504 Predicted membrane protein (DUF2319); Region: DUF2319; pfam10081 643562002505 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 643562002506 Mechanosensitive ion channel; Region: MS_channel; pfam00924 643562002507 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 643562002508 Ferritin-like domain; Region: Ferritin; pfam00210 643562002509 heme binding site [chemical binding]; other site 643562002510 ferroxidase pore; other site 643562002511 ferroxidase diiron center [ion binding]; other site 643562002512 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 643562002513 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 643562002514 Catalytic site [active] 643562002515 GTP-binding protein LepA; Provisional; Region: PRK05433 643562002516 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 643562002517 G1 box; other site 643562002518 putative GEF interaction site [polypeptide binding]; other site 643562002519 GTP/Mg2+ binding site [chemical binding]; other site 643562002520 Switch I region; other site 643562002521 G2 box; other site 643562002522 G3 box; other site 643562002523 Switch II region; other site 643562002524 G4 box; other site 643562002525 G5 box; other site 643562002526 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 643562002527 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 643562002528 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 643562002529 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 643562002530 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 643562002531 DNA binding residues [nucleotide binding] 643562002532 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 643562002533 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 643562002534 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 643562002535 DNA binding residues [nucleotide binding] 643562002536 dimerization interface [polypeptide binding]; other site 643562002537 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 643562002538 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 643562002539 substrate binding pocket [chemical binding]; other site 643562002540 membrane-bound complex binding site; other site 643562002541 hinge residues; other site 643562002542 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 643562002543 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643562002544 dimer interface [polypeptide binding]; other site 643562002545 conserved gate region; other site 643562002546 putative PBP binding loops; other site 643562002547 ABC-ATPase subunit interface; other site 643562002548 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 643562002549 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 643562002550 Walker A/P-loop; other site 643562002551 ATP binding site [chemical binding]; other site 643562002552 Q-loop/lid; other site 643562002553 ABC transporter signature motif; other site 643562002554 Walker B; other site 643562002555 D-loop; other site 643562002556 H-loop/switch region; other site 643562002557 lysine-2,3-aminomutase; Region: lys_2_3_AblA; TIGR03820 643562002558 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 643562002559 FeS/SAM binding site; other site 643562002560 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 643562002561 putative beta-lysine N-acetyltransferase; Region: GNAT_ablB; TIGR03827 643562002562 GTPase RsgA; Reviewed; Region: PRK01889 643562002563 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 643562002564 RNA binding site [nucleotide binding]; other site 643562002565 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 643562002566 GTPase/Zn-binding domain interface [polypeptide binding]; other site 643562002567 GTP/Mg2+ binding site [chemical binding]; other site 643562002568 G4 box; other site 643562002569 G5 box; other site 643562002570 G1 box; other site 643562002571 Switch I region; other site 643562002572 G2 box; other site 643562002573 G3 box; other site 643562002574 Switch II region; other site 643562002575 Catalytic domain of bacterial phosphatidylinositol-specific phospholipase C and similar proteins; Region: PI-PLCc_bacteria_like; cd08557 643562002576 active site 643562002577 catalytic site [active] 643562002578 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 643562002579 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 643562002580 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 643562002581 HlyD family secretion protein; Region: HlyD_3; pfam13437 643562002582 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 643562002583 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 643562002584 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 643562002585 Protein of unknown function (DUF721); Region: DUF721; pfam05258 643562002586 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 643562002587 Ligand Binding Site [chemical binding]; other site 643562002588 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 643562002589 Ligand Binding Site [chemical binding]; other site 643562002590 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 643562002591 putative active site pocket [active] 643562002592 dimerization interface [polypeptide binding]; other site 643562002593 putative catalytic residue [active] 643562002594 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 643562002595 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 643562002596 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 643562002597 CoA binding domain; Region: CoA_binding_2; pfam13380 643562002598 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 643562002599 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 643562002600 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 643562002601 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cd00491 643562002602 active site 1 [active] 643562002603 dimer interface [polypeptide binding]; other site 643562002604 hexamer interface [polypeptide binding]; other site 643562002605 active site 2 [active] 643562002606 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 643562002607 heme-binding residues [chemical binding]; other site 643562002608 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 643562002609 heme-binding residues [chemical binding]; other site 643562002610 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 643562002611 heme-binding residues [chemical binding]; other site 643562002612 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 643562002613 heme-binding residues [chemical binding]; other site 643562002614 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 643562002615 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 643562002616 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 643562002617 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 643562002618 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 643562002619 putative ADP-ribose binding site [chemical binding]; other site 643562002620 putative active site [active] 643562002621 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 643562002622 active site 643562002623 HslU subunit interaction site [polypeptide binding]; other site 643562002624 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 643562002625 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 643562002626 Walker A motif; other site 643562002627 ATP binding site [chemical binding]; other site 643562002628 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 643562002629 Walker B motif; other site 643562002630 arginine finger; other site 643562002631 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 643562002632 Agmatinase and related proteins; Region: Agmatinase-like_2; cd11593 643562002633 agmatinase; Region: agmatinase; TIGR01230 643562002634 putative active site [active] 643562002635 Mn binding site [ion binding]; other site 643562002636 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 643562002637 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 643562002638 Cl- selectivity filter; other site 643562002639 Cl- binding residues [ion binding]; other site 643562002640 pore gating glutamate residue; other site 643562002641 dimer interface [polypeptide binding]; other site 643562002642 FOG: CBS domain [General function prediction only]; Region: COG0517 643562002643 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc2; cd04613 643562002644 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 643562002645 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 643562002646 active site 643562002647 Riboflavin kinase; Region: Flavokinase; pfam01687 643562002648 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 643562002649 Peptidase family M48; Region: Peptidase_M48; pfam01435 643562002650 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 643562002651 binding surface 643562002652 TPR motif; other site 643562002653 transcription termination factor Rho; Provisional; Region: rho; PRK09376 643562002654 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 643562002655 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 643562002656 RNA binding site [nucleotide binding]; other site 643562002657 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 643562002658 multimer interface [polypeptide binding]; other site 643562002659 Walker A motif; other site 643562002660 ATP binding site [chemical binding]; other site 643562002661 Walker B motif; other site 643562002662 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 643562002663 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 643562002664 putative active site [active] 643562002665 catalytic residue [active] 643562002666 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 643562002667 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 643562002668 5S rRNA interface [nucleotide binding]; other site 643562002669 CTC domain interface [polypeptide binding]; other site 643562002670 L16 interface [polypeptide binding]; other site 643562002671 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 643562002672 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 643562002673 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 643562002674 active site 643562002675 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14615 643562002676 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 643562002677 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 643562002678 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 643562002679 protein binding site [polypeptide binding]; other site 643562002680 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 643562002681 protein binding site [polypeptide binding]; other site 643562002682 Pyruvate decarboxylase and related thiamine pyrophosphate-requiring enzymes [Carbohydrate transport and metabolism / Coenzyme metabolism / General function prediction only]; Region: COG3961 643562002683 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 643562002684 dimer interface [polypeptide binding]; other site 643562002685 PYR/PP interface [polypeptide binding]; other site 643562002686 TPP binding site [chemical binding]; other site 643562002687 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 643562002688 Thiamine pyrophosphate (TPP) family, PDC_IPDC subfamily, TPP-binding module; composed of proteins similar to pyruvate decarboxylase (PDC) and indolepyruvate decarboxylase (IPDC). PDC, a key enzyme in alcoholic fermentation, catalyzes the conversion of...; Region: TPP_PDC_IPDC; cd02005 643562002689 TPP-binding site [chemical binding]; other site 643562002690 dimer interface [polypeptide binding]; other site 643562002691 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 643562002692 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 643562002693 putative active site [active] 643562002694 heme pocket [chemical binding]; other site 643562002695 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 643562002696 putative active site [active] 643562002697 heme pocket [chemical binding]; other site 643562002698 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 643562002699 PAS fold; Region: PAS_3; pfam08447 643562002700 putative active site [active] 643562002701 heme pocket [chemical binding]; other site 643562002702 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 643562002703 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 643562002704 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 643562002705 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 643562002706 dimer interface [polypeptide binding]; other site 643562002707 phosphorylation site [posttranslational modification] 643562002708 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 643562002709 ATP binding site [chemical binding]; other site 643562002710 Mg2+ binding site [ion binding]; other site 643562002711 G-X-G motif; other site 643562002712 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 643562002713 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 643562002714 dimerization interface [polypeptide binding]; other site 643562002715 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643562002716 dimer interface [polypeptide binding]; other site 643562002717 putative CheW interface [polypeptide binding]; other site 643562002718 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 643562002719 active site residue [active] 643562002720 YceI-like domain; Region: YceI; pfam04264 643562002721 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 643562002722 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 643562002723 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; pfam01258 643562002724 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 643562002725 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 643562002726 Walker A/P-loop; other site 643562002727 ATP binding site [chemical binding]; other site 643562002728 Q-loop/lid; other site 643562002729 ABC transporter signature motif; other site 643562002730 Walker B; other site 643562002731 D-loop; other site 643562002732 H-loop/switch region; other site 643562002733 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 643562002734 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 643562002735 ABC-ATPase subunit interface; other site 643562002736 dimer interface [polypeptide binding]; other site 643562002737 putative PBP binding regions; other site 643562002738 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 643562002739 Metal binding protein HemV-2. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: HemV-2; cd01147 643562002740 putative metal binding site [ion binding]; other site 643562002741 Agmatinase and related proteins; Region: Agmatinase-like_2; cd11593 643562002742 putative active site [active] 643562002743 Mn binding site [ion binding]; other site 643562002744 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 643562002745 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 643562002746 dimer interface [polypeptide binding]; other site 643562002747 active site 643562002748 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 643562002749 catalytic residues [active] 643562002750 substrate binding site [chemical binding]; other site 643562002751 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 643562002752 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 643562002753 arginine decarboxylase; Provisional; Region: PRK05354 643562002754 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 643562002755 dimer interface [polypeptide binding]; other site 643562002756 active site 643562002757 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 643562002758 catalytic residues [active] 643562002759 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 643562002760 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 643562002761 Uncharacterized protein family UPF0052; Region: UPF0052; pfam01933 643562002762 phosphate binding site [ion binding]; other site 643562002763 putative substrate binding pocket [chemical binding]; other site 643562002764 dimer interface [polypeptide binding]; other site 643562002765 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR6; cd08272 643562002766 Enoylreductase; Region: PKS_ER; smart00829 643562002767 putative NAD(P) binding site [chemical binding]; other site 643562002768 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...; Region: Peptidase_C39_likeD; cd02421 643562002769 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 643562002770 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 643562002771 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 643562002772 Walker A/P-loop; other site 643562002773 ATP binding site [chemical binding]; other site 643562002774 Q-loop/lid; other site 643562002775 ABC transporter signature motif; other site 643562002776 Walker B; other site 643562002777 D-loop; other site 643562002778 H-loop/switch region; other site 643562002779 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 643562002780 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 643562002781 HlyD family secretion protein; Region: HlyD_3; pfam13437 643562002782 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; cl17596 643562002783 PAS fold; Region: PAS_4; pfam08448 643562002784 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 643562002785 putative active site [active] 643562002786 heme pocket [chemical binding]; other site 643562002787 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 643562002788 Zn2+ binding site [ion binding]; other site 643562002789 Mg2+ binding site [ion binding]; other site 643562002790 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_7; cd13133 643562002791 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 643562002792 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 643562002793 VCBS repeat; Region: VCBS_repeat; TIGR01965 643562002794 VCBS repeat; Region: VCBS_repeat; TIGR01965 643562002795 VCBS repeat; Region: VCBS_repeat; TIGR01965 643562002796 VCBS repeat; Region: VCBS_repeat; TIGR01965 643562002797 VCBS repeat; Region: VCBS_repeat; TIGR01965 643562002798 VCBS repeat; Region: VCBS_repeat; TIGR01965 643562002799 VCBS repeat; Region: VCBS_repeat; TIGR01965 643562002800 VCBS repeat; Region: VCBS_repeat; TIGR01965 643562002801 VCBS repeat; Region: VCBS_repeat; TIGR01965 643562002802 VCBS repeat; Region: VCBS_repeat; TIGR01965 643562002803 VCBS repeat; Region: VCBS_repeat; TIGR01965 643562002804 CshA-type fibril repeat; Region: CshA_fibril_rpt; TIGR04225 643562002805 CshA-type fibril repeat; Region: CshA_fibril_rpt; TIGR04225 643562002806 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 643562002807 Ca2+ binding site [ion binding]; other site 643562002808 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 643562002809 Ca2+ binding site [ion binding]; other site 643562002810 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 643562002811 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 643562002812 ATP binding site [chemical binding]; other site 643562002813 Mg2+ binding site [ion binding]; other site 643562002814 G-X-G motif; other site 643562002815 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 643562002816 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 643562002817 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 643562002818 Coenzyme A binding pocket [chemical binding]; other site 643562002819 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 643562002820 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 643562002821 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 643562002822 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 643562002823 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 643562002824 generic binding surface II; other site 643562002825 generic binding surface I; other site 643562002826 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 643562002827 Peptidase family M23; Region: Peptidase_M23; pfam01551 643562002828 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 643562002829 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 643562002830 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 643562002831 substrate binding pocket [chemical binding]; other site 643562002832 chain length determination region; other site 643562002833 substrate-Mg2+ binding site; other site 643562002834 catalytic residues [active] 643562002835 aspartate-rich region 1; other site 643562002836 active site lid residues [active] 643562002837 aspartate-rich region 2; other site 643562002838 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 643562002839 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 643562002840 TPP-binding site; other site 643562002841 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 643562002842 PYR/PP interface [polypeptide binding]; other site 643562002843 dimer interface [polypeptide binding]; other site 643562002844 TPP binding site [chemical binding]; other site 643562002845 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 643562002846 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 643562002847 SEC-C motif; Region: SEC-C; pfam02810 643562002848 hypothetical protein; Provisional; Region: PRK09256 643562002849 DEDDy 3'-5' exonuclease domain of WRN and similar proteins; Region: WRN_exo; cd06141 643562002850 catalytic site [active] 643562002851 putative active site [active] 643562002852 putative substrate binding site [chemical binding]; other site 643562002853 phenol 2-monooxygenase; Provisional; Region: PRK08294 643562002854 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 643562002855 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 643562002856 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 643562002857 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 643562002858 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 643562002859 LytB protein; Region: LYTB; cl00507 643562002860 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; cl00399 643562002861 MoaE homodimer interface [polypeptide binding]; other site 643562002862 MoaD interaction [polypeptide binding]; other site 643562002863 active site residues [active] 643562002864 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 643562002865 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 643562002866 FeS/SAM binding site; other site 643562002867 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 643562002868 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 643562002869 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 643562002870 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 643562002871 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 643562002872 dimerization interface [polypeptide binding]; other site 643562002873 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 643562002874 PAS domain; Region: PAS_9; pfam13426 643562002875 putative active site [active] 643562002876 heme pocket [chemical binding]; other site 643562002877 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643562002878 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643562002879 metal binding site [ion binding]; metal-binding site 643562002880 active site 643562002881 I-site; other site 643562002882 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 643562002883 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 643562002884 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; cl17736 643562002885 active site 643562002886 phosphorylation site [posttranslational modification] 643562002887 intermolecular recognition site; other site 643562002888 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 643562002889 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 643562002890 Zn2+ binding site [ion binding]; other site 643562002891 Mg2+ binding site [ion binding]; other site 643562002892 NMT1/THI5 like; Region: NMT1; pfam09084 643562002893 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 643562002894 substrate binding pocket [chemical binding]; other site 643562002895 membrane-bound complex binding site; other site 643562002896 hinge residues; other site 643562002897 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 643562002898 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 643562002899 putative active site [active] 643562002900 heme pocket [chemical binding]; other site 643562002901 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 643562002902 putative active site [active] 643562002903 heme pocket [chemical binding]; other site 643562002904 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 643562002905 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 643562002906 ATP binding site [chemical binding]; other site 643562002907 Mg2+ binding site [ion binding]; other site 643562002908 G-X-G motif; other site 643562002909 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 643562002910 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 643562002911 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 643562002912 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 643562002913 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 643562002914 ligand binding site [chemical binding]; other site 643562002915 HAMP domain; Region: HAMP; pfam00672 643562002916 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 643562002917 PAS domain; Region: PAS_9; pfam13426 643562002918 putative active site [active] 643562002919 heme pocket [chemical binding]; other site 643562002920 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 643562002921 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643562002922 dimer interface [polypeptide binding]; other site 643562002923 putative CheW interface [polypeptide binding]; other site 643562002924 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 643562002925 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 643562002926 ATP binding site [chemical binding]; other site 643562002927 Mg++ binding site [ion binding]; other site 643562002928 motif III; other site 643562002929 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 643562002930 nucleotide binding region [chemical binding]; other site 643562002931 ATP-binding site [chemical binding]; other site 643562002932 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 643562002933 RNA binding site [nucleotide binding]; other site 643562002934 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 643562002935 rRNA binding site [nucleotide binding]; other site 643562002936 predicted 30S ribosome binding site; other site 643562002937 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 643562002938 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 643562002939 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 643562002940 binding surface 643562002941 TPR motif; other site 643562002942 Tetratricopeptide repeat; Region: TPR_12; pfam13424 643562002943 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 643562002944 binding surface 643562002945 TPR motif; other site 643562002946 TPR repeat; Region: TPR_11; pfam13414 643562002947 Dienelactone hydrolase family; Region: DLH; pfam01738 643562002948 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 643562002949 BNR repeat-like domain; Region: BNR_2; pfam13088 643562002950 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cl17698 643562002951 Asp-box motif; other site 643562002952 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 643562002953 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 643562002954 acyl-activating enzyme (AAE) consensus motif; other site 643562002955 AMP binding site [chemical binding]; other site 643562002956 active site 643562002957 CoA binding site [chemical binding]; other site 643562002958 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 643562002959 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 643562002960 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 643562002961 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 643562002962 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 643562002963 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 643562002964 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 643562002965 Nitrogen regulatory protein P-II; Region: P-II; cl00412 643562002966 Nitrogen regulatory protein P-II; Region: P-II; smart00938 643562002967 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 643562002968 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 643562002969 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 643562002970 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 643562002971 substrate binding site [chemical binding]; other site 643562002972 active site 643562002973 catalytic residues [active] 643562002974 heterodimer interface [polypeptide binding]; other site 643562002975 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 643562002976 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 643562002977 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643562002978 catalytic residue [active] 643562002979 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...; Region: PRAI; cd00405 643562002980 active site 643562002981 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 643562002982 active site 643562002983 ribulose/triose binding site [chemical binding]; other site 643562002984 phosphate binding site [ion binding]; other site 643562002985 substrate (anthranilate) binding pocket [chemical binding]; other site 643562002986 product (indole) binding pocket [chemical binding]; other site 643562002987 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 643562002988 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 643562002989 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 643562002990 Glutamine amidotransferase class-I; Region: GATase; pfam00117 643562002991 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 643562002992 glutamine binding [chemical binding]; other site 643562002993 catalytic triad [active] 643562002994 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 643562002995 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 643562002996 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 643562002997 prephenate dehydrogenase; Provisional; Region: PRK06444 643562002998 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 643562002999 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 643562003000 hinge; other site 643562003001 active site 643562003002 Chorismate mutase type II; Region: CM_2; pfam01817 643562003003 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 643562003004 Prephenate dehydratase; Region: PDT; pfam00800 643562003005 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 643562003006 putative L-Phe binding site [chemical binding]; other site 643562003007 Predicted alternative 3-dehydroquinate synthase [Amino acid transport and metabolism]; Region: COG1465 643562003008 3-dehydroquinate synthase; Provisional; Region: PRK02290 643562003009 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 643562003010 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 643562003011 putative active site; other site 643562003012 catalytic residue [active] 643562003013 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 643562003014 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 643562003015 Nitrogen regulatory protein P-II; Region: P-II; smart00938 643562003016 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 643562003017 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 643562003018 AAA domain; Region: AAA_26; pfam13500 643562003019 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 643562003020 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 643562003021 inhibitor-cofactor binding pocket; inhibition site 643562003022 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643562003023 catalytic residue [active] 643562003024 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 643562003025 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 643562003026 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 643562003027 catalytic residue [active] 643562003028 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 643562003029 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 643562003030 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 643562003031 S-adenosylmethionine binding site [chemical binding]; other site 643562003032 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 643562003033 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 643562003034 substrate binding pocket [chemical binding]; other site 643562003035 membrane-bound complex binding site; other site 643562003036 S-adenosylmethionine synthetase; Validated; Region: PRK05250 643562003037 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 643562003038 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 643562003039 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 643562003040 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 643562003041 tetramerization interface [polypeptide binding]; other site 643562003042 active site 643562003043 pantoate--beta-alanine ligase; Region: panC; TIGR00018 643562003044 Pantoate-beta-alanine ligase; Region: PanC; cd00560 643562003045 active site 643562003046 ATP-binding site [chemical binding]; other site 643562003047 pantoate-binding site; other site 643562003048 HXXH motif; other site 643562003049 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643562003050 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643562003051 metal binding site [ion binding]; metal-binding site 643562003052 active site 643562003053 I-site; other site 643562003054 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 643562003055 TPR motif; other site 643562003056 TPR repeat; Region: TPR_11; pfam13414 643562003057 binding surface 643562003058 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 643562003059 binding surface 643562003060 TPR motif; other site 643562003061 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 643562003062 binding surface 643562003063 TPR repeat; Region: TPR_11; pfam13414 643562003064 TPR motif; other site 643562003065 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 643562003066 ATP cone domain; Region: ATP-cone; pfam03477 643562003067 Class III ribonucleotide reductase; Region: RNR_III; cd01675 643562003068 effector binding site; other site 643562003069 active site 643562003070 Zn binding site [ion binding]; other site 643562003071 glycine loop; other site 643562003072 phosphoglucomutase; Validated; Region: PRK07564 643562003073 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 643562003074 active site 643562003075 substrate binding site [chemical binding]; other site 643562003076 metal binding site [ion binding]; metal-binding site 643562003077 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 643562003078 dimerization interface [polypeptide binding]; other site 643562003079 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 643562003080 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643562003081 dimer interface [polypeptide binding]; other site 643562003082 putative CheW interface [polypeptide binding]; other site 643562003083 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 643562003084 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 643562003085 ligand binding site [chemical binding]; other site 643562003086 Peptidase family M48; Region: Peptidase_M48; pfam01435 643562003087 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 643562003088 TPR motif; other site 643562003089 binding surface 643562003090 Cache domain; Region: Cache_1; pfam02743 643562003091 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 643562003092 dimerization interface [polypeptide binding]; other site 643562003093 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 643562003094 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643562003095 dimer interface [polypeptide binding]; other site 643562003096 putative CheW interface [polypeptide binding]; other site 643562003097 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 643562003098 The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA; cd08489 643562003099 substrate binding site [chemical binding]; other site 643562003100 nickel transporter permease NikB; Provisional; Region: PRK10352 643562003101 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643562003102 dimer interface [polypeptide binding]; other site 643562003103 conserved gate region; other site 643562003104 putative PBP binding loops; other site 643562003105 ABC-ATPase subunit interface; other site 643562003106 nickel transporter permease NikC; Provisional; Region: nikC; PRK10417 643562003107 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643562003108 dimer interface [polypeptide binding]; other site 643562003109 conserved gate region; other site 643562003110 putative PBP binding loops; other site 643562003111 ABC-ATPase subunit interface; other site 643562003112 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 643562003113 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 643562003114 Walker A/P-loop; other site 643562003115 ATP binding site [chemical binding]; other site 643562003116 Q-loop/lid; other site 643562003117 ABC transporter signature motif; other site 643562003118 Walker B; other site 643562003119 D-loop; other site 643562003120 H-loop/switch region; other site 643562003121 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 643562003122 nickel import ATP-binding protein NikE; Region: nickel_nikE; TIGR02769 643562003123 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 643562003124 Walker A/P-loop; other site 643562003125 ATP binding site [chemical binding]; other site 643562003126 Q-loop/lid; other site 643562003127 ABC transporter signature motif; other site 643562003128 Walker B; other site 643562003129 D-loop; other site 643562003130 H-loop/switch region; other site 643562003131 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 643562003132 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 643562003133 Domain of unknown function (DUF1844); Region: DUF1844; pfam08899 643562003134 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 643562003135 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 643562003136 HlyD family secretion protein; Region: HlyD_3; pfam13437 643562003137 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 643562003138 Ion transport protein; Region: Ion_trans; pfam00520 643562003139 Ion channel; Region: Ion_trans_2; pfam07885 643562003140 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 643562003141 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 643562003142 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 643562003143 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 643562003144 putative active site [active] 643562003145 putative substrate binding site [chemical binding]; other site 643562003146 putative cosubstrate binding site; other site 643562003147 catalytic site [active] 643562003148 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 643562003149 dimer interface [polypeptide binding]; other site 643562003150 active site 643562003151 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 643562003152 Response regulator receiver domain; Region: Response_reg; pfam00072 643562003153 active site 643562003154 phosphorylation site [posttranslational modification] 643562003155 intermolecular recognition site; other site 643562003156 dimerization interface [polypeptide binding]; other site 643562003157 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 643562003158 PAS fold; Region: PAS_3; pfam08447 643562003159 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 643562003160 heme pocket [chemical binding]; other site 643562003161 putative active site [active] 643562003162 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 643562003163 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 643562003164 putative active site [active] 643562003165 heme pocket [chemical binding]; other site 643562003166 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 643562003167 putative active site [active] 643562003168 heme pocket [chemical binding]; other site 643562003169 PAS domain S-box; Region: sensory_box; TIGR00229 643562003170 PAS domain; Region: PAS; smart00091 643562003171 PAS domain S-box; Region: sensory_box; TIGR00229 643562003172 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 643562003173 putative active site [active] 643562003174 heme pocket [chemical binding]; other site 643562003175 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 643562003176 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 643562003177 dimer interface [polypeptide binding]; other site 643562003178 phosphorylation site [posttranslational modification] 643562003179 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 643562003180 ATP binding site [chemical binding]; other site 643562003181 Mg2+ binding site [ion binding]; other site 643562003182 G-X-G motif; other site 643562003183 Response regulator receiver domain; Region: Response_reg; pfam00072 643562003184 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 643562003185 active site 643562003186 phosphorylation site [posttranslational modification] 643562003187 intermolecular recognition site; other site 643562003188 dimerization interface [polypeptide binding]; other site 643562003189 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 643562003190 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 643562003191 dimer interface [polypeptide binding]; other site 643562003192 phosphorylation site [posttranslational modification] 643562003193 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 643562003194 ATP binding site [chemical binding]; other site 643562003195 Mg2+ binding site [ion binding]; other site 643562003196 G-X-G motif; other site 643562003197 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 643562003198 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 643562003199 active site 643562003200 phosphorylation site [posttranslational modification] 643562003201 intermolecular recognition site; other site 643562003202 dimerization interface [polypeptide binding]; other site 643562003203 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 643562003204 Walker A motif; other site 643562003205 ATP binding site [chemical binding]; other site 643562003206 Walker B motif; other site 643562003207 arginine finger; other site 643562003208 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 643562003209 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 643562003210 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 643562003211 putative active site [active] 643562003212 heme pocket [chemical binding]; other site 643562003213 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 643562003214 dimer interface [polypeptide binding]; other site 643562003215 phosphorylation site [posttranslational modification] 643562003216 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 643562003217 ATP binding site [chemical binding]; other site 643562003218 Mg2+ binding site [ion binding]; other site 643562003219 G-X-G motif; other site 643562003220 Response regulator receiver domain; Region: Response_reg; pfam00072 643562003221 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 643562003222 active site 643562003223 phosphorylation site [posttranslational modification] 643562003224 intermolecular recognition site; other site 643562003225 dimerization interface [polypeptide binding]; other site 643562003226 Response regulator receiver domain; Region: Response_reg; pfam00072 643562003227 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 643562003228 active site 643562003229 phosphorylation site [posttranslational modification] 643562003230 intermolecular recognition site; other site 643562003231 dimerization interface [polypeptide binding]; other site 643562003232 Response regulator receiver domain; Region: Response_reg; pfam00072 643562003233 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 643562003234 active site 643562003235 phosphorylation site [posttranslational modification] 643562003236 intermolecular recognition site; other site 643562003237 dimerization interface [polypeptide binding]; other site 643562003238 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 643562003239 dimer interface [polypeptide binding]; other site 643562003240 phosphorylation site [posttranslational modification] 643562003241 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 643562003242 ATP binding site [chemical binding]; other site 643562003243 Mg2+ binding site [ion binding]; other site 643562003244 G-X-G motif; other site 643562003245 Response regulator receiver domain; Region: Response_reg; pfam00072 643562003246 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 643562003247 active site 643562003248 phosphorylation site [posttranslational modification] 643562003249 intermolecular recognition site; other site 643562003250 dimerization interface [polypeptide binding]; other site 643562003251 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 643562003252 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 643562003253 Predicted permease; Region: DUF318; cl17795 643562003254 Domain of unknown function (DUF1980); Region: DUF1980; cl01492 643562003255 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 643562003256 metal binding site 2 [ion binding]; metal-binding site 643562003257 putative DNA binding helix; other site 643562003258 metal binding site 1 [ion binding]; metal-binding site 643562003259 dimer interface [polypeptide binding]; other site 643562003260 structural Zn2+ binding site [ion binding]; other site 643562003261 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 643562003262 Metal binding protein ZntC. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: ZntC; cd01018 643562003263 putative metal binding residues [ion binding]; other site 643562003264 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 643562003265 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 643562003266 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 643562003267 trans-homoaconitate synthase; Reviewed; Region: aksA; PRK11858 643562003268 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 643562003269 active site 643562003270 catalytic residues [active] 643562003271 metal binding site [ion binding]; metal-binding site 643562003272 nitrogenase reductase; Reviewed; Region: nifH; PRK13235 643562003273 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 643562003274 Nucleotide-binding sites [chemical binding]; other site 643562003275 Walker A motif; other site 643562003276 Switch I region of nucleotide binding site; other site 643562003277 Fe4S4 binding sites [ion binding]; other site 643562003278 Switch II region of nucleotide binding site; other site 643562003279 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 643562003280 Nitrogen regulatory protein P-II; Region: P-II; smart00938 643562003281 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 643562003282 Nitrogen regulatory protein P-II; Region: P-II; smart00938 643562003283 nitrogenase alpha chain; Region: alt_nitrog_alph; TIGR01284 643562003284 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 643562003285 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 643562003286 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 643562003287 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 643562003288 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 643562003289 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 643562003290 dimer interface [polypeptide binding]; other site 643562003291 [2Fe-2S] cluster binding site [ion binding]; other site 643562003292 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 643562003293 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 643562003294 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 643562003295 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 643562003296 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 643562003297 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 643562003298 FeS/SAM binding site; other site 643562003299 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 643562003300 Nif-specific regulatory protein; Region: nifA; TIGR01817 643562003301 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 643562003302 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 643562003303 Walker A motif; other site 643562003304 ATP binding site [chemical binding]; other site 643562003305 Walker B motif; other site 643562003306 arginine finger; other site 643562003307 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 643562003308 PBP superfamily domain; Region: PBP_like_2; cl17296 643562003309 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 643562003310 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643562003311 dimer interface [polypeptide binding]; other site 643562003312 conserved gate region; other site 643562003313 putative PBP binding loops; other site 643562003314 ABC-ATPase subunit interface; other site 643562003315 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 643562003316 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 643562003317 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643562003318 ABC-ATPase subunit interface; other site 643562003319 Cache domain; Region: Cache_1; pfam02743 643562003320 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 643562003321 PAS domain; Region: PAS_9; pfam13426 643562003322 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 643562003323 putative active site [active] 643562003324 heme pocket [chemical binding]; other site 643562003325 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 643562003326 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643562003327 dimer interface [polypeptide binding]; other site 643562003328 putative CheW interface [polypeptide binding]; other site 643562003329 uncharacterized radical SAM protein YgiQ; Region: SAM_YgiQ; TIGR03904 643562003330 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 643562003331 helicase 45; Provisional; Region: PTZ00424 643562003332 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 643562003333 ATP binding site [chemical binding]; other site 643562003334 Mg++ binding site [ion binding]; other site 643562003335 motif III; other site 643562003336 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 643562003337 nucleotide binding region [chemical binding]; other site 643562003338 ATP-binding site [chemical binding]; other site 643562003339 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 643562003340 ATP-NAD kinase; Region: NAD_kinase; pfam01513 643562003341 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 643562003342 dimer interface [polypeptide binding]; other site 643562003343 Citrate synthase; Region: Citrate_synt; pfam00285 643562003344 active site 643562003345 citrylCoA binding site [chemical binding]; other site 643562003346 NADH binding [chemical binding]; other site 643562003347 cationic pore residues; other site 643562003348 oxalacetate/citrate binding site [chemical binding]; other site 643562003349 coenzyme A binding site [chemical binding]; other site 643562003350 catalytic triad [active] 643562003351 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 643562003352 4Fe-4S binding domain; Region: Fer4; pfam00037 643562003353 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 643562003354 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 643562003355 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 643562003356 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 643562003357 RNB domain; Region: RNB; pfam00773 643562003358 Uncharacterized conserved protein [Function unknown]; Region: COG4095 643562003359 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 643562003360 Cache domain; Region: Cache_2; pfam08269 643562003361 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 643562003362 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 643562003363 dimerization interface [polypeptide binding]; other site 643562003364 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643562003365 dimer interface [polypeptide binding]; other site 643562003366 putative CheW interface [polypeptide binding]; other site 643562003367 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 643562003368 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 643562003369 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643562003370 dimer interface [polypeptide binding]; other site 643562003371 putative CheW interface [polypeptide binding]; other site 643562003372 Hemerythrin; Region: Hemerythrin; cd12107 643562003373 Fe binding site [ion binding]; other site 643562003374 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 643562003375 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 643562003376 GDP-binding site [chemical binding]; other site 643562003377 ACT binding site; other site 643562003378 IMP binding site; other site 643562003379 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 643562003380 DNA polymerase III subunit delta'; Validated; Region: PRK08485 643562003381 Protein of unknown function (DUF401); Region: DUF401; cl00830 643562003382 4Fe-4S binding domain; Region: Fer4; pfam00037 643562003383 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 643562003384 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 643562003385 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 643562003386 putative GEF interaction site [polypeptide binding]; other site 643562003387 G1 box; other site 643562003388 GTP/Mg2+ binding site [chemical binding]; other site 643562003389 Switch I region; other site 643562003390 G2 box; other site 643562003391 G3 box; other site 643562003392 Switch II region; other site 643562003393 G4 box; other site 643562003394 G5 box; other site 643562003395 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 643562003396 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 643562003397 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 643562003398 aromatic amino acid transport protein; Region: araaP; TIGR00837 643562003399 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 643562003400 Aspartase; Region: Aspartase; cd01357 643562003401 active sites [active] 643562003402 tetramer interface [polypeptide binding]; other site 643562003403 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 643562003404 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 643562003405 Sporulation related domain; Region: SPOR; pfam05036 643562003406 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 643562003407 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 643562003408 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 643562003409 dimer interface [polypeptide binding]; other site 643562003410 phosphorylation site [posttranslational modification] 643562003411 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 643562003412 ATP binding site [chemical binding]; other site 643562003413 Mg2+ binding site [ion binding]; other site 643562003414 G-X-G motif; other site 643562003415 Response regulator receiver domain; Region: Response_reg; pfam00072 643562003416 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 643562003417 active site 643562003418 phosphorylation site [posttranslational modification] 643562003419 intermolecular recognition site; other site 643562003420 dimerization interface [polypeptide binding]; other site 643562003421 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 643562003422 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 643562003423 active site 643562003424 phosphorylation site [posttranslational modification] 643562003425 intermolecular recognition site; other site 643562003426 dimerization interface [polypeptide binding]; other site 643562003427 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 643562003428 Walker A motif; other site 643562003429 ATP binding site [chemical binding]; other site 643562003430 Walker B motif; other site 643562003431 arginine finger; other site 643562003432 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 643562003433 IHF dimer interface [polypeptide binding]; other site 643562003434 IHF - DNA interface [nucleotide binding]; other site 643562003435 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 643562003436 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 643562003437 dimer interface [polypeptide binding]; other site 643562003438 PYR/PP interface [polypeptide binding]; other site 643562003439 TPP binding site [chemical binding]; other site 643562003440 substrate binding site [chemical binding]; other site 643562003441 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 643562003442 Domain of unknown function; Region: EKR; pfam10371 643562003443 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 643562003444 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 643562003445 TPP-binding site [chemical binding]; other site 643562003446 dimer interface [polypeptide binding]; other site 643562003447 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 643562003448 L-lactate permease; Region: Lactate_perm; cl00701 643562003449 FAD binding domain; Region: FAD_binding_4; pfam01565 643562003450 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 643562003451 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 643562003452 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 643562003453 Cysteine-rich domain; Region: CCG; pfam02754 643562003454 Cysteine-rich domain; Region: CCG; pfam02754 643562003455 phosphate acetyltransferase; Reviewed; Region: PRK05632 643562003456 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 643562003457 DRTGG domain; Region: DRTGG; pfam07085 643562003458 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 643562003459 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 643562003460 propionate/acetate kinase; Provisional; Region: PRK12379 643562003461 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 643562003462 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 643562003463 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 643562003464 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 643562003465 Cysteine-rich domain; Region: CCG; pfam02754 643562003466 Cysteine-rich domain; Region: CCG; pfam02754 643562003467 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 643562003468 PAS domain; Region: PAS_9; pfam13426 643562003469 putative active site [active] 643562003470 heme pocket [chemical binding]; other site 643562003471 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 643562003472 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643562003473 dimer interface [polypeptide binding]; other site 643562003474 putative CheW interface [polypeptide binding]; other site 643562003475 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 643562003476 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 643562003477 Na+/H+ ion antiporter subunit; Region: MNHE; pfam01899 643562003478 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12599 643562003479 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 643562003480 Domain of unknown function (DUF4040); Region: DUF4040; pfam13244 643562003481 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 643562003482 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 643562003483 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK07375 643562003484 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 643562003485 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 643562003486 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 643562003487 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 643562003488 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12668 643562003489 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 643562003490 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 643562003491 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 643562003492 ligand binding site [chemical binding]; other site 643562003493 flexible hinge region; other site 643562003494 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 643562003495 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 643562003496 active site 643562003497 phosphorylation site [posttranslational modification] 643562003498 intermolecular recognition site; other site 643562003499 dimerization interface [polypeptide binding]; other site 643562003500 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 643562003501 DNA binding site [nucleotide binding] 643562003502 Mechanosensitive ion channel; Region: MS_channel; pfam00924 643562003503 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 643562003504 putative trimer interface [polypeptide binding]; other site 643562003505 putative CoA binding site [chemical binding]; other site 643562003506 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 643562003507 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 643562003508 transmembrane helices; other site 643562003509 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 643562003510 Response regulator receiver domain; Region: Response_reg; pfam00072 643562003511 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 643562003512 active site 643562003513 phosphorylation site [posttranslational modification] 643562003514 intermolecular recognition site; other site 643562003515 dimerization interface [polypeptide binding]; other site 643562003516 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 643562003517 PAS domain; Region: PAS_9; pfam13426 643562003518 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 643562003519 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 643562003520 Walker A motif; other site 643562003521 ATP binding site [chemical binding]; other site 643562003522 Walker B motif; other site 643562003523 arginine finger; other site 643562003524 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 643562003525 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 643562003526 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 643562003527 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 643562003528 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 643562003529 Soluble P-type ATPase [General function prediction only]; Region: COG4087 643562003530 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 643562003531 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 643562003532 Low molecular weight phosphatase family; Region: LMWPc; cl00105 643562003533 active site 643562003534 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 643562003535 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 643562003536 Sulfate transporter family; Region: Sulfate_transp; pfam00916 643562003537 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 643562003538 Response regulator receiver domain; Region: Response_reg; pfam00072 643562003539 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 643562003540 active site 643562003541 phosphorylation site [posttranslational modification] 643562003542 intermolecular recognition site; other site 643562003543 dimerization interface [polypeptide binding]; other site 643562003544 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 643562003545 dimerization interface [polypeptide binding]; other site 643562003546 putative DNA binding site [nucleotide binding]; other site 643562003547 putative Zn2+ binding site [ion binding]; other site 643562003548 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 643562003549 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 643562003550 Walker A/P-loop; other site 643562003551 ATP binding site [chemical binding]; other site 643562003552 Q-loop/lid; other site 643562003553 ABC transporter signature motif; other site 643562003554 Walker B; other site 643562003555 D-loop; other site 643562003556 H-loop/switch region; other site 643562003557 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 643562003558 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 643562003559 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 643562003560 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 643562003561 dimerization interface [polypeptide binding]; other site 643562003562 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 643562003563 phosphorylation site [posttranslational modification] 643562003564 dimer interface [polypeptide binding]; other site 643562003565 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 643562003566 ATP binding site [chemical binding]; other site 643562003567 Mg2+ binding site [ion binding]; other site 643562003568 G-X-G motif; other site 643562003569 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 643562003570 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 643562003571 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; cl17244 643562003572 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 643562003573 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 643562003574 active site 643562003575 phosphorylation site [posttranslational modification] 643562003576 intermolecular recognition site; other site 643562003577 dimerization interface [polypeptide binding]; other site 643562003578 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 643562003579 DNA binding site [nucleotide binding] 643562003580 flagellin; Provisional; Region: PRK12802 643562003581 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 643562003582 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 643562003583 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 643562003584 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 643562003585 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 643562003586 DNA binding residues [nucleotide binding] 643562003587 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 643562003588 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 643562003589 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 643562003590 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 643562003591 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 643562003592 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 643562003593 flagellar hook-associated protein FlgK; Region: flgK_ends; TIGR02492 643562003594 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08471 643562003595 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 643562003596 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 643562003597 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 643562003598 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 643562003599 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 643562003600 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 643562003601 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 643562003602 dimerization interface [polypeptide binding]; other site 643562003603 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 643562003604 dimer interface [polypeptide binding]; other site 643562003605 phosphorylation site [posttranslational modification] 643562003606 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 643562003607 ATP binding site [chemical binding]; other site 643562003608 Mg2+ binding site [ion binding]; other site 643562003609 G-X-G motif; other site 643562003610 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 643562003611 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 643562003612 active site 643562003613 phosphorylation site [posttranslational modification] 643562003614 intermolecular recognition site; other site 643562003615 dimerization interface [polypeptide binding]; other site 643562003616 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 643562003617 DNA binding site [nucleotide binding] 643562003618 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 643562003619 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 643562003620 HlyD family secretion protein; Region: HlyD_3; pfam13437 643562003621 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 643562003622 HAMP domain; Region: HAMP; pfam00672 643562003623 dimerization interface [polypeptide binding]; other site 643562003624 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 643562003625 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643562003626 dimer interface [polypeptide binding]; other site 643562003627 putative CheW interface [polypeptide binding]; other site 643562003628 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 643562003629 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 643562003630 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 643562003631 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 643562003632 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 643562003633 FtsX-like permease family; Region: FtsX; pfam02687 643562003634 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 643562003635 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 643562003636 Walker A/P-loop; other site 643562003637 ATP binding site [chemical binding]; other site 643562003638 Q-loop/lid; other site 643562003639 ABC transporter signature motif; other site 643562003640 Walker B; other site 643562003641 D-loop; other site 643562003642 H-loop/switch region; other site 643562003643 PAS domain; Region: PAS_9; pfam13426 643562003644 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 643562003645 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 643562003646 HlyD family secretion protein; Region: HlyD_3; pfam13437 643562003647 Outer membrane efflux protein; Region: OEP; pfam02321 643562003648 Outer membrane efflux protein; Region: OEP; pfam02321 643562003649 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 643562003650 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 643562003651 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 643562003652 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 643562003653 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 643562003654 dimer interface [polypeptide binding]; other site 643562003655 phosphorylation site [posttranslational modification] 643562003656 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 643562003657 ATP binding site [chemical binding]; other site 643562003658 Mg2+ binding site [ion binding]; other site 643562003659 G-X-G motif; other site 643562003660 Response regulator receiver domain; Region: Response_reg; pfam00072 643562003661 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 643562003662 active site 643562003663 phosphorylation site [posttranslational modification] 643562003664 intermolecular recognition site; other site 643562003665 dimerization interface [polypeptide binding]; other site 643562003666 PAS domain; Region: PAS; smart00091 643562003667 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 643562003668 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 643562003669 active site 643562003670 phosphorylation site [posttranslational modification] 643562003671 intermolecular recognition site; other site 643562003672 dimerization interface [polypeptide binding]; other site 643562003673 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 643562003674 Walker A motif; other site 643562003675 ATP binding site [chemical binding]; other site 643562003676 Walker B motif; other site 643562003677 arginine finger; other site 643562003678 PAS domain; Region: PAS_9; pfam13426 643562003679 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 643562003680 ATP binding site [chemical binding]; other site 643562003681 Mg2+ binding site [ion binding]; other site 643562003682 G-X-G motif; other site 643562003683 Response regulator receiver domain; Region: Response_reg; pfam00072 643562003684 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 643562003685 active site 643562003686 phosphorylation site [posttranslational modification] 643562003687 intermolecular recognition site; other site 643562003688 dimerization interface [polypeptide binding]; other site 643562003689 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 643562003690 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 643562003691 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 643562003692 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 643562003693 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 643562003694 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643562003695 dimer interface [polypeptide binding]; other site 643562003696 conserved gate region; other site 643562003697 putative PBP binding loops; other site 643562003698 ABC-ATPase subunit interface; other site 643562003699 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 643562003700 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643562003701 dimer interface [polypeptide binding]; other site 643562003702 conserved gate region; other site 643562003703 putative PBP binding loops; other site 643562003704 ABC-ATPase subunit interface; other site 643562003705 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 643562003706 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 643562003707 Walker A/P-loop; other site 643562003708 ATP binding site [chemical binding]; other site 643562003709 Q-loop/lid; other site 643562003710 ABC transporter signature motif; other site 643562003711 Walker B; other site 643562003712 D-loop; other site 643562003713 H-loop/switch region; other site 643562003714 TOBE domain; Region: TOBE_2; pfam08402 643562003715 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 643562003716 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 643562003717 Walker A/P-loop; other site 643562003718 ATP binding site [chemical binding]; other site 643562003719 Q-loop/lid; other site 643562003720 ABC transporter signature motif; other site 643562003721 Walker B; other site 643562003722 D-loop; other site 643562003723 H-loop/switch region; other site 643562003724 TOBE domain; Region: TOBE_2; pfam08402 643562003725 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 643562003726 FeS/SAM binding site; other site 643562003727 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 643562003728 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 643562003729 putative [4Fe-4S] binding site [ion binding]; other site 643562003730 putative molybdopterin cofactor binding site [chemical binding]; other site 643562003731 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 643562003732 molybdopterin cofactor binding site; other site 643562003733 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 643562003734 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 643562003735 catalytic triad [active] 643562003736 Predicted permeases [General function prediction only]; Region: COG0679 643562003737 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 643562003738 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 643562003739 Flavodoxin domain; Region: Flavodoxin_5; cl17428 643562003740 4Fe-4S binding domain; Region: Fer4; cl02805 643562003741 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 643562003742 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 643562003743 selenocysteine synthase; Provisional; Region: PRK04311 643562003744 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 643562003745 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 643562003746 catalytic residue [active] 643562003747 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 643562003748 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 643562003749 oligomer interface [polypeptide binding]; other site 643562003750 putative active site [active] 643562003751 metal binding site [ion binding]; metal-binding site 643562003752 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 643562003753 active site 643562003754 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 643562003755 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 643562003756 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 643562003757 G1 box; other site 643562003758 putative GEF interaction site [polypeptide binding]; other site 643562003759 GTP/Mg2+ binding site [chemical binding]; other site 643562003760 Switch I region; other site 643562003761 G2 box; other site 643562003762 G3 box; other site 643562003763 Switch II region; other site 643562003764 G4 box; other site 643562003765 G5 box; other site 643562003766 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 643562003767 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 643562003768 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 643562003769 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 643562003770 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 643562003771 putative amphipathic alpha helix; other site 643562003772 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 643562003773 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 643562003774 hinge; other site 643562003775 active site 643562003776 malate synthase G; Provisional; Region: PRK02999 643562003777 active site 643562003778 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 643562003779 active site 643562003780 putative phosphonate metabolism protein; Region: Phn_opern_protn; TIGR03223 643562003781 phosphonate metabolim protein, transferase hexapeptide repeat family; Region: phn_thr-fam; TIGR03308 643562003782 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 643562003783 trimer interface [polypeptide binding]; other site 643562003784 active site 643562003785 substrate binding site [chemical binding]; other site 643562003786 CoA binding site [chemical binding]; other site 643562003787 phosphonates metabolism transcriptional regulator PhnF; Region: C_P_lyase_phnF; TIGR02325 643562003788 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 643562003789 DNA-binding site [nucleotide binding]; DNA binding site 643562003790 UTRA domain; Region: UTRA; pfam07702 643562003791 Phosphonate metabolism protein PhnG; Region: PhnG; pfam06754 643562003792 Bacterial phosphonate metabolism protein (PhnH); Region: PhnH; pfam05845 643562003793 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; pfam05861 643562003794 Phosphonate metabolism protein PhnJ; Region: PhnJ; pfam06007 643562003795 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 643562003796 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 643562003797 Walker A/P-loop; other site 643562003798 ATP binding site [chemical binding]; other site 643562003799 Q-loop/lid; other site 643562003800 ABC transporter signature motif; other site 643562003801 Walker B; other site 643562003802 D-loop; other site 643562003803 H-loop/switch region; other site 643562003804 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 643562003805 ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PhnL; COG4778 643562003806 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 643562003807 Walker A/P-loop; other site 643562003808 ATP binding site [chemical binding]; other site 643562003809 Q-loop/lid; other site 643562003810 ABC transporter signature motif; other site 643562003811 Walker B; other site 643562003812 D-loop; other site 643562003813 H-loop/switch region; other site 643562003814 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 643562003815 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 643562003816 PhnM is believed to be a subunit of the membrane associated C-P lyase complex. C-P lyase is thought to catalyze the direct cleavage of inactivated C-P bonds to yield inorganic phosphate and the corresponding hydrocarbons. It is responsible for cleavage...; Region: PhnM; cd01306 643562003817 active site 643562003818 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 643562003819 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 643562003820 Walker A/P-loop; other site 643562003821 ATP binding site [chemical binding]; other site 643562003822 Q-loop/lid; other site 643562003823 ABC transporter signature motif; other site 643562003824 Walker B; other site 643562003825 D-loop; other site 643562003826 H-loop/switch region; other site 643562003827 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 643562003828 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 643562003829 substrate binding pocket [chemical binding]; other site 643562003830 membrane-bound complex binding site; other site 643562003831 hinge residues; other site 643562003832 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 643562003833 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643562003834 dimer interface [polypeptide binding]; other site 643562003835 conserved gate region; other site 643562003836 putative PBP binding loops; other site 643562003837 ABC-ATPase subunit interface; other site 643562003838 XXXCH domain; Region: XXXCH_domain; TIGR04358 643562003839 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 643562003840 amphi-Trp domain; Region: amphi-Trp; TIGR04354 643562003841 PhoU domain; Region: PhoU; pfam01895 643562003842 PhoU domain; Region: PhoU; pfam01895 643562003843 ATP-grasp enzyme, GAK system; Region: grasp_GAK; TIGR04356 643562003844 ATP-grasp domain; Region: ATP-grasp_4; cl17255 643562003845 HprK-related kinase B; Region: HprK_rel_B; TIGR04355 643562003846 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 643562003847 active site 643562003848 nucleotide-binding site [chemical binding]; other site 643562003849 metal-binding site [ion binding] 643562003850 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 643562003851 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 643562003852 phosphate binding site [ion binding]; other site 643562003853 putative substrate binding pocket [chemical binding]; other site 643562003854 dimer interface [polypeptide binding]; other site 643562003855 amphi-Trp domain; Region: amphi-Trp; TIGR04354 643562003856 aldehyde oxidase; Region: PLN00192 643562003857 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 643562003858 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 643562003859 P-loop; other site 643562003860 Magnesium ion binding site [ion binding]; other site 643562003861 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 643562003862 Magnesium ion binding site [ion binding]; other site 643562003863 amphi-Trp domain; Region: amphi-Trp; TIGR04354 643562003864 thiosulfate reductase PhsA; Provisional; Region: PRK15488 643562003865 The MopB_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_Thiosulfate-R-like; cd02755 643562003866 putative [Fe4-S4] binding site [ion binding]; other site 643562003867 putative molybdopterin cofactor binding site [chemical binding]; other site 643562003868 The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_CT_Thiosulfate-R-like; cd02778 643562003869 putative molybdopterin cofactor binding site; other site 643562003870 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 643562003871 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 643562003872 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 643562003873 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 643562003874 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 643562003875 putative active site [active] 643562003876 heme pocket [chemical binding]; other site 643562003877 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 643562003878 dimer interface [polypeptide binding]; other site 643562003879 phosphorylation site [posttranslational modification] 643562003880 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 643562003881 ATP binding site [chemical binding]; other site 643562003882 Mg2+ binding site [ion binding]; other site 643562003883 G-X-G motif; other site 643562003884 Response regulator receiver domain; Region: Response_reg; pfam00072 643562003885 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 643562003886 active site 643562003887 phosphorylation site [posttranslational modification] 643562003888 intermolecular recognition site; other site 643562003889 dimerization interface [polypeptide binding]; other site 643562003890 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 643562003891 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 643562003892 Predicted protein-tyrosine phosphatase [Signal transduction mechanisms]; Region: CDC14; COG2453 643562003893 active site 643562003894 catalytic residues [active] 643562003895 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 643562003896 Competence protein; Region: Competence; pfam03772 643562003897 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 643562003898 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 643562003899 HDOD domain; Region: HDOD; pfam08668 643562003900 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 643562003901 Zn2+ binding site [ion binding]; other site 643562003902 Mg2+ binding site [ion binding]; other site 643562003903 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 643562003904 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 643562003905 Response regulator receiver domain; Region: Response_reg; pfam00072 643562003906 active site 643562003907 phosphorylation site [posttranslational modification] 643562003908 intermolecular recognition site; other site 643562003909 dimerization interface [polypeptide binding]; other site 643562003910 PSP1 C-terminal conserved region; Region: PSP1; cl00770 643562003911 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 643562003912 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 643562003913 active site 643562003914 HIGH motif; other site 643562003915 KMSKS motif; other site 643562003916 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 643562003917 anticodon binding site; other site 643562003918 tRNA binding surface [nucleotide binding]; other site 643562003919 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 643562003920 dimer interface [polypeptide binding]; other site 643562003921 putative tRNA-binding site [nucleotide binding]; other site 643562003922 Protein of unknown function (DUF523); Region: DUF523; pfam04463 643562003923 Uncharacterized conserved protein [Function unknown]; Region: COG3272 643562003924 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 643562003925 Protein of unknown function (DUF523); Region: DUF523; pfam04463 643562003926 Uncharacterized conserved protein [Function unknown]; Region: COG3272 643562003927 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 643562003928 This entry represents the core domain of the ferrous iron (Fe2+) transport protein FeoA found in bacteria; Region: FeoA; smart00899 643562003929 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 643562003930 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 643562003931 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 643562003932 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 643562003933 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 643562003934 ATP-grasp domain; Region: ATP-grasp_4; cl17255 643562003935 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 643562003936 IMP binding site; other site 643562003937 dimer interface [polypeptide binding]; other site 643562003938 interdomain contacts; other site 643562003939 partial ornithine binding site; other site 643562003940 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 643562003941 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 643562003942 active site 643562003943 tetramer interface [polypeptide binding]; other site 643562003944 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 643562003945 active site 643562003946 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 643562003947 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 643562003948 putative active site [active] 643562003949 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 643562003950 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 643562003951 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 643562003952 Transglycosylase; Region: Transgly; pfam00912 643562003953 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 643562003954 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 643562003955 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 643562003956 Peptidase family U32; Region: Peptidase_U32; pfam01136 643562003957 Peptidase family U32; Region: Peptidase_U32; cl03113 643562003958 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 643562003959 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 643562003960 FAD binding pocket [chemical binding]; other site 643562003961 FAD binding motif [chemical binding]; other site 643562003962 phosphate binding motif [ion binding]; other site 643562003963 beta-alpha-beta structure motif; other site 643562003964 NAD binding pocket [chemical binding]; other site 643562003965 Iron coordination center [ion binding]; other site 643562003966 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 643562003967 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. 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...; Region: DHOD_1B_like; cd04740 643562003968 heterodimer interface [polypeptide binding]; other site 643562003969 active site 643562003970 FMN binding site [chemical binding]; other site 643562003971 homodimer interface [polypeptide binding]; other site 643562003972 substrate binding site [chemical binding]; other site 643562003973 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 643562003974 membrane-bound complex binding site; other site 643562003975 hinge residues; other site 643562003976 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 643562003977 Sodium Bile acid symporter family; Region: SBF; pfam01758 643562003978 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 643562003979 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 643562003980 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 643562003981 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 643562003982 Walker A/P-loop; other site 643562003983 ATP binding site [chemical binding]; other site 643562003984 Q-loop/lid; other site 643562003985 ABC transporter signature motif; other site 643562003986 Walker B; other site 643562003987 D-loop; other site 643562003988 H-loop/switch region; other site 643562003989 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 643562003990 active site residue [active] 643562003991 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 643562003992 diiron binding motif [ion binding]; other site 643562003993 EamA-like transporter family; Region: EamA; cl17759 643562003994 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 643562003995 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 643562003996 RNA binding surface [nucleotide binding]; other site 643562003997 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 643562003998 S-adenosylmethionine binding site [chemical binding]; other site 643562003999 threonine synthase; Validated; Region: PRK06260 643562004000 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 643562004001 homodimer interface [polypeptide binding]; other site 643562004002 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643562004003 catalytic residue [active] 643562004004 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 643562004005 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 643562004006 acyl-activating enzyme (AAE) consensus motif; other site 643562004007 AMP binding site [chemical binding]; other site 643562004008 active site 643562004009 CoA binding site [chemical binding]; other site 643562004010 replicative DNA helicase; Region: DnaB; TIGR00665 643562004011 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 643562004012 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 643562004013 Walker A motif; other site 643562004014 ATP binding site [chemical binding]; other site 643562004015 Walker B motif; other site 643562004016 DNA binding loops [nucleotide binding] 643562004017 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 643562004018 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 643562004019 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 643562004020 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 643562004021 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 643562004022 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 643562004023 ATP binding site [chemical binding]; other site 643562004024 active site 643562004025 substrate binding site [chemical binding]; other site 643562004026 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 643562004027 histidinol dehydrogenase; Region: hisD; TIGR00069 643562004028 NAD binding site [chemical binding]; other site 643562004029 dimerization interface [polypeptide binding]; other site 643562004030 product binding site; other site 643562004031 substrate binding site [chemical binding]; other site 643562004032 zinc binding site [ion binding]; other site 643562004033 catalytic residues [active] 643562004034 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 643562004035 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 643562004036 GIY-YIG motif/motif A; other site 643562004037 active site 643562004038 catalytic site [active] 643562004039 putative DNA binding site [nucleotide binding]; other site 643562004040 metal binding site [ion binding]; metal-binding site 643562004041 UvrB/uvrC motif; Region: UVR; pfam02151 643562004042 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 643562004043 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 643562004044 DNA binding site [nucleotide binding] 643562004045 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 643562004046 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 643562004047 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 643562004048 Flavoprotein; Region: Flavoprotein; pfam02441 643562004049 Hemerythrin; Region: Hemerythrin; cd12107 643562004050 Fe binding site [ion binding]; other site 643562004051 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; pfam01977 643562004052 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 643562004053 putative binding surface; other site 643562004054 active site 643562004055 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 643562004056 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 643562004057 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 643562004058 active site 643562004059 phosphorylation site [posttranslational modification] 643562004060 intermolecular recognition site; other site 643562004061 dimerization interface [polypeptide binding]; other site 643562004062 glutamate dehydrogenase 2; Provisional; Region: PTZ00324 643562004063 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 643562004064 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 643562004065 dimer interface [polypeptide binding]; other site 643562004066 catalytic triad [active] 643562004067 peroxidatic and resolving cysteines [active] 643562004068 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 643562004069 dimerization interface [polypeptide binding]; other site 643562004070 putative DNA binding site [nucleotide binding]; other site 643562004071 putative Zn2+ binding site [ion binding]; other site 643562004072 Predicted permeases [General function prediction only]; Region: COG0701 643562004073 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; cl17432 643562004074 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 643562004075 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 643562004076 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 643562004077 Walker A/P-loop; other site 643562004078 ATP binding site [chemical binding]; other site 643562004079 Q-loop/lid; other site 643562004080 ABC transporter signature motif; other site 643562004081 Walker B; other site 643562004082 D-loop; other site 643562004083 H-loop/switch region; other site 643562004084 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 643562004085 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643562004086 putative PBP binding loops; other site 643562004087 dimer interface [polypeptide binding]; other site 643562004088 ABC-ATPase subunit interface; other site 643562004089 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 643562004090 PhoH-like protein; Region: PhoH; pfam02562 643562004091 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 643562004092 Divergent AAA domain; Region: AAA_4; pfam04326 643562004093 ornithine carbamoyltransferase; Provisional; Region: PRK00779 643562004094 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 643562004095 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 643562004096 argininosuccinate synthase; Provisional; Region: PRK13820 643562004097 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 643562004098 ANP binding site [chemical binding]; other site 643562004099 Substrate Binding Site II [chemical binding]; other site 643562004100 Substrate Binding Site I [chemical binding]; other site 643562004101 argininosuccinate lyase; Provisional; Region: PRK00855 643562004102 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 643562004103 active sites [active] 643562004104 tetramer interface [polypeptide binding]; other site 643562004105 FtsH Extracellular; Region: FtsH_ext; pfam06480 643562004106 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 643562004107 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 643562004108 Walker A motif; other site 643562004109 ATP binding site [chemical binding]; other site 643562004110 Walker B motif; other site 643562004111 arginine finger; other site 643562004112 Peptidase family M41; Region: Peptidase_M41; pfam01434 643562004113 dihydropteroate synthase; Region: DHPS; TIGR01496 643562004114 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 643562004115 substrate binding pocket [chemical binding]; other site 643562004116 dimer interface [polypeptide binding]; other site 643562004117 inhibitor binding site; inhibition site 643562004118 TIGR00159 family protein; Region: TIGR00159 643562004119 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 643562004120 YbbR-like protein; Region: YbbR; pfam07949 643562004121 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14314 643562004122 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 643562004123 active site 643562004124 substrate binding site [chemical binding]; other site 643562004125 metal binding site [ion binding]; metal-binding site 643562004126 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 643562004127 active site 643562004128 tetramer interface; other site 643562004129 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 643562004130 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; cl17251 643562004131 ATP binding site [chemical binding]; other site 643562004132 nucleotide binding region [chemical binding]; other site 643562004133 helicase superfamily c-terminal domain; Region: HELICc; smart00490 643562004134 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 643562004135 Bacterial SH3 domain; Region: SH3_3; cl17532 643562004136 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 643562004137 thiS-thiF/thiG interaction site; other site 643562004138 thiazole synthase; Reviewed; Region: thiG; PRK00208 643562004139 phosphate binding site [ion binding]; other site 643562004140 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 643562004141 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 643562004142 FeS/SAM binding site; other site 643562004143 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 643562004144 thiamine biosynthesis protein ThiF; Provisional; Region: PRK08644 643562004145 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 643562004146 ATP binding site [chemical binding]; other site 643562004147 substrate interface [chemical binding]; other site 643562004148 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 643562004149 thiamine phosphate binding site [chemical binding]; other site 643562004150 active site 643562004151 pyrophosphate binding site [ion binding]; other site 643562004152 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 643562004153 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 643562004154 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 643562004155 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 643562004156 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 643562004157 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 643562004158 Coenzyme A binding pocket [chemical binding]; other site 643562004159 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 643562004160 active site 643562004161 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 643562004162 Radical SAM superfamily; Region: Radical_SAM; pfam04055 643562004163 FeS/SAM binding site; other site 643562004164 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 643562004165 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 643562004166 Ligand binding site; other site 643562004167 Putative Catalytic site; other site 643562004168 DXD motif; other site 643562004169 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 643562004170 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 643562004171 active site 643562004172 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 643562004173 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 643562004174 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 643562004175 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 643562004176 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 643562004177 NAD binding site [chemical binding]; other site 643562004178 putative substrate binding site 2 [chemical binding]; other site 643562004179 putative substrate binding site 1 [chemical binding]; other site 643562004180 active site 643562004181 2-phosphosulpholactate phosphatase; Region: 2-ph_phosp; cl00895 643562004182 Phosphosulfolactate phosphohydrolase and related enzymes [Coenzyme metabolism / General function prediction only]; Region: COG2045 643562004183 Response regulator receiver domain; Region: Response_reg; pfam00072 643562004184 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 643562004185 active site 643562004186 phosphorylation site [posttranslational modification] 643562004187 intermolecular recognition site; other site 643562004188 dimerization interface [polypeptide binding]; other site 643562004189 PAS domain S-box; Region: sensory_box; TIGR00229 643562004190 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 643562004191 putative active site [active] 643562004192 heme pocket [chemical binding]; other site 643562004193 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643562004194 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643562004195 metal binding site [ion binding]; metal-binding site 643562004196 active site 643562004197 I-site; other site 643562004198 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 643562004199 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 643562004200 substrate binding pocket [chemical binding]; other site 643562004201 membrane-bound complex binding site; other site 643562004202 hinge residues; other site 643562004203 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 643562004204 NADH dehydrogenase subunit B; Validated; Region: PRK06411 643562004205 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 643562004206 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 643562004207 NADH dehydrogenase subunit D; Validated; Region: PRK06075 643562004208 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 643562004209 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 643562004210 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 643562004211 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 643562004212 NADH:ubiquinone oxidoreductase subunit 6 (chain J) [Energy production and conversion]; Region: NuoJ; COG0839 643562004213 NADH dehydrogenase subunit J; Provisional; Region: PRK06439 643562004214 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 643562004215 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 643562004216 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 643562004217 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12668 643562004218 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 643562004219 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 643562004220 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 643562004221 NADH:ubiquinone oxidoreductase subunit 2 (chain N) [Energy production and conversion]; Region: NuoN; COG1007 643562004222 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 643562004223 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 643562004224 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 643562004225 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; cl17270 643562004226 GTP-binding protein YchF; Reviewed; Region: PRK09601 643562004227 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 643562004228 G3 box; other site 643562004229 Switch II region; other site 643562004230 GTP/Mg2+ binding site [chemical binding]; other site 643562004231 G4 box; other site 643562004232 G5 box; other site 643562004233 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 643562004234 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 643562004235 Shikimate kinase; Region: SKI; pfam01202 643562004236 ADP binding site [chemical binding]; other site 643562004237 magnesium binding site [ion binding]; other site 643562004238 putative shikimate binding site; other site 643562004239 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 643562004240 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 643562004241 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 643562004242 GIY-YIG motif/motif A; other site 643562004243 putative active site [active] 643562004244 putative metal binding site [ion binding]; other site 643562004245 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 643562004246 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 643562004247 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 643562004248 Walker A/P-loop; other site 643562004249 ATP binding site [chemical binding]; other site 643562004250 Q-loop/lid; other site 643562004251 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 643562004252 ABC transporter signature motif; other site 643562004253 Walker B; other site 643562004254 D-loop; other site 643562004255 ABC transporter; Region: ABC_tran_2; pfam12848 643562004256 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 643562004257 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 643562004258 active site 643562004259 8-oxo-dGMP binding site [chemical binding]; other site 643562004260 nudix motif; other site 643562004261 metal binding site [ion binding]; metal-binding site 643562004262 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 643562004263 FAD binding site [chemical binding]; other site 643562004264 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 643562004265 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 643562004266 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 643562004267 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 643562004268 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643562004269 catalytic residue [active] 643562004270 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 643562004271 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 643562004272 Sulfate transporter family; Region: Sulfate_transp; pfam00916 643562004273 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 643562004274 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 643562004275 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 643562004276 ligand binding site [chemical binding]; other site 643562004277 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 643562004278 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 643562004279 NADP binding site [chemical binding]; other site 643562004280 active site 643562004281 putative substrate binding site [chemical binding]; other site 643562004282 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 643562004283 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 643562004284 NAD binding site [chemical binding]; other site 643562004285 substrate binding site [chemical binding]; other site 643562004286 homodimer interface [polypeptide binding]; other site 643562004287 active site 643562004288 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 643562004289 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/FeS domain-containing protein protein; Provisional; Region: PRK14494 643562004290 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 643562004291 Putative Fe-S cluster; Region: FeS; cl17515 643562004292 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 643562004293 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 643562004294 Walker A/P-loop; other site 643562004295 ATP binding site [chemical binding]; other site 643562004296 Q-loop/lid; other site 643562004297 ABC transporter signature motif; other site 643562004298 Walker B; other site 643562004299 D-loop; other site 643562004300 H-loop/switch region; other site 643562004301 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643562004302 dimer interface [polypeptide binding]; other site 643562004303 conserved gate region; other site 643562004304 putative PBP binding loops; other site 643562004305 ABC-ATPase subunit interface; other site 643562004306 PBP superfamily domain; Region: PBP_like_2; pfam12849 643562004307 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 643562004308 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 643562004309 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 643562004310 ATP binding site [chemical binding]; other site 643562004311 substrate interface [chemical binding]; other site 643562004312 ThiS family; Region: ThiS; pfam02597 643562004313 charged pocket; other site 643562004314 hydrophobic patch; other site 643562004315 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; smart00790 643562004316 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 643562004317 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 643562004318 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 643562004319 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 643562004320 PAS domain; Region: PAS_9; pfam13426 643562004321 putative active site [active] 643562004322 heme pocket [chemical binding]; other site 643562004323 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 643562004324 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 643562004325 Walker A motif; other site 643562004326 ATP binding site [chemical binding]; other site 643562004327 Walker B motif; other site 643562004328 arginine finger; other site 643562004329 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 643562004330 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 643562004331 Cysteine-rich domain; Region: CCG; pfam02754 643562004332 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 643562004333 4Fe-4S binding domain; Region: Fer4; pfam00037 643562004334 putative oxidoreductase; Provisional; Region: PRK12831 643562004335 electron transport complex, RnfABCDGE type, A subunit; Region: rnfA; TIGR01943 643562004336 electron transport complex RsxE subunit; Provisional; Region: PRK12405 643562004337 FMN-binding domain; Region: FMN_bind; cl01081 643562004338 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 643562004339 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 643562004340 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 643562004341 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 643562004342 heme-binding residues [chemical binding]; other site 643562004343 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 643562004344 heme-binding residues [chemical binding]; other site 643562004345 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 643562004346 heme-binding residues [chemical binding]; other site 643562004347 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 643562004348 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 643562004349 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 643562004350 active site 643562004351 phosphorylation site [posttranslational modification] 643562004352 intermolecular recognition site; other site 643562004353 dimerization interface [polypeptide binding]; other site 643562004354 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 643562004355 binding surface 643562004356 TPR motif; other site 643562004357 Tetratricopeptide repeat; Region: TPR_12; pfam13424 643562004358 TPR repeat; Region: TPR_11; pfam13414 643562004359 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 643562004360 TPR motif; other site 643562004361 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 643562004362 Zn2+ binding site [ion binding]; other site 643562004363 Mg2+ binding site [ion binding]; other site 643562004364 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 643562004365 Response regulator receiver domain; Region: Response_reg; pfam00072 643562004366 active site 643562004367 phosphorylation site [posttranslational modification] 643562004368 intermolecular recognition site; other site 643562004369 dimerization interface [polypeptide binding]; other site 643562004370 Tim44-like domain; Region: Tim44; cl09208 643562004371 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 643562004372 S-adenosylmethionine binding site [chemical binding]; other site 643562004373 uncharacterized domain; Region: TIGR00702 643562004374 YcaO-like family; Region: YcaO; pfam02624 643562004375 TPR repeat; Region: TPR_11; pfam13414 643562004376 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 643562004377 binding surface 643562004378 TPR motif; other site 643562004379 TPR repeat; Region: TPR_11; pfam13414 643562004380 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 643562004381 DsrC like protein; Region: DsrC; pfam04358 643562004382 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 643562004383 Protein of unknown function (DUF1385); Region: DUF1385; pfam07136 643562004384 peptide chain release factor 1; Validated; Region: prfA; PRK00591 643562004385 This domain is found in peptide chain release factors; Region: PCRF; smart00937 643562004386 RF-1 domain; Region: RF-1; pfam00472 643562004387 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 643562004388 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 643562004389 S-adenosylmethionine binding site [chemical binding]; other site 643562004390 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 643562004391 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 643562004392 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 643562004393 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 643562004394 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 643562004395 active site 643562004396 phosphorylation site [posttranslational modification] 643562004397 intermolecular recognition site; other site 643562004398 dimerization interface [polypeptide binding]; other site 643562004399 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 643562004400 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 643562004401 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 643562004402 DNA binding residues [nucleotide binding] 643562004403 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 643562004404 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 643562004405 P-loop; other site 643562004406 flagellar biosynthetic protein FlhF; Region: FlhF; TIGR03499 643562004407 SRP54-type protein, GTPase domain; Region: SRP54; smart00962 643562004408 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 643562004409 FHIPEP family; Region: FHIPEP; pfam00771 643562004410 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 643562004411 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 643562004412 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 643562004413 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 643562004414 Peptidase family M23; Region: Peptidase_M23; pfam01551 643562004415 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 643562004416 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 643562004417 Ligand Binding Site [chemical binding]; other site 643562004418 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 643562004419 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 643562004420 chaperone protein DnaJ; Provisional; Region: PRK14301 643562004421 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 643562004422 HSP70 interaction site [polypeptide binding]; other site 643562004423 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 643562004424 Zn binding sites [ion binding]; other site 643562004425 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 643562004426 dimer interface [polypeptide binding]; other site 643562004427 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 643562004428 trimer interface [polypeptide binding]; other site 643562004429 dimer interface [polypeptide binding]; other site 643562004430 putative active site [active] 643562004431 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 643562004432 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 643562004433 substrate binding site [chemical binding]; other site 643562004434 glutamase interaction surface [polypeptide binding]; other site 643562004435 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 643562004436 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 643562004437 putative active site [active] 643562004438 oxyanion strand; other site 643562004439 catalytic triad [active] 643562004440 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 643562004441 HSP70 interaction site [polypeptide binding]; other site 643562004442 Flagellin N-methylase; Region: FliB; pfam03692 643562004443 CoA binding domain; Region: CoA_binding_2; pfam13380 643562004444 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 643562004445 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 643562004446 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 643562004447 active site 643562004448 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 643562004449 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 643562004450 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH1; cd08185 643562004451 putative active site [active] 643562004452 metal binding site [ion binding]; metal-binding site 643562004453 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 643562004454 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 643562004455 Probable galacturonosyltransferase; Region: PLN02829 643562004456 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 643562004457 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 643562004458 dimer interface [polypeptide binding]; other site 643562004459 PYR/PP interface [polypeptide binding]; other site 643562004460 TPP binding site [chemical binding]; other site 643562004461 substrate binding site [chemical binding]; other site 643562004462 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 643562004463 Domain of unknown function; Region: EKR; pfam10371 643562004464 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 643562004465 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 643562004466 TPP-binding site [chemical binding]; other site 643562004467 dimer interface [polypeptide binding]; other site 643562004468 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 643562004469 Major Facilitator Superfamily; Region: MFS_1; pfam07690 643562004470 putative substrate translocation pore; other site 643562004471 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 643562004472 ApbE family; Region: ApbE; pfam02424 643562004473 RHS protein; Region: RHS; pfam03527 643562004474 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 643562004475 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 643562004476 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 643562004477 active site residue [active] 643562004478 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 643562004479 active site residue [active] 643562004480 Na/Pi-cotransporter; Region: NaPi_cotrn_rel; TIGR00704 643562004481 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 643562004482 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 643562004483 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 643562004484 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 643562004485 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 643562004486 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 643562004487 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 643562004488 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 643562004489 Walker A/P-loop; other site 643562004490 ATP binding site [chemical binding]; other site 643562004491 Q-loop/lid; other site 643562004492 ABC transporter signature motif; other site 643562004493 Walker B; other site 643562004494 D-loop; other site 643562004495 H-loop/switch region; other site 643562004496 HlyD family secretion protein; Region: HlyD; pfam00529 643562004497 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 643562004498 HlyD family secretion protein; Region: HlyD_3; pfam13437 643562004499 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 643562004500 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 643562004501 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 643562004502 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 643562004503 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 643562004504 dimer interface [polypeptide binding]; other site 643562004505 putative anticodon binding site; other site 643562004506 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 643562004507 motif 1; other site 643562004508 active site 643562004509 motif 2; other site 643562004510 motif 3; other site 643562004511 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 643562004512 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 643562004513 FtsX-like permease family; Region: FtsX; pfam02687 643562004514 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 643562004515 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 643562004516 Walker A/P-loop; other site 643562004517 ATP binding site [chemical binding]; other site 643562004518 Q-loop/lid; other site 643562004519 ABC transporter signature motif; other site 643562004520 Walker B; other site 643562004521 D-loop; other site 643562004522 H-loop/switch region; other site 643562004523 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 643562004524 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 643562004525 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 643562004526 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 643562004527 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 643562004528 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 643562004529 Surface antigen; Region: Bac_surface_Ag; pfam01103 643562004530 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 643562004531 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 643562004532 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 643562004533 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 643562004534 trimer interface [polypeptide binding]; other site 643562004535 active site 643562004536 UDP-GlcNAc binding site [chemical binding]; other site 643562004537 lipid binding site [chemical binding]; lipid-binding site 643562004538 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 643562004539 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 643562004540 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 643562004541 active site 643562004542 Protein of unknown function (DUF1009); Region: DUF1009; pfam06230 643562004543 Protein of unknown function DUF89; Region: DUF89; cl15397 643562004544 AsmA family; Region: AsmA; pfam05170 643562004545 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 643562004546 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 643562004547 Transcriptional regulator; Region: Rrf2; cl17282 643562004548 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 643562004549 putative active site [active] 643562004550 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 643562004551 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 643562004552 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 643562004553 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 643562004554 minor groove reading motif; other site 643562004555 helix-hairpin-helix signature motif; other site 643562004556 substrate binding pocket [chemical binding]; other site 643562004557 active site 643562004558 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 643562004559 CutA1 divalent ion tolerance protein; Region: CutA1; pfam03091 643562004560 Ribokinase-like subgroup A. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_A; cd01942 643562004561 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 643562004562 substrate binding site [chemical binding]; other site 643562004563 ATP binding site [chemical binding]; other site 643562004564 Phosphotransferase enzyme family; Region: APH; pfam01636 643562004565 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; cl17270 643562004566 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 643562004567 active site 643562004568 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14337 643562004569 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 643562004570 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 643562004571 FeS/SAM binding site; other site 643562004572 Bifunctional nuclease; Region: DNase-RNase; pfam02577 643562004573 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 643562004574 active site 643562004575 hypothetical protein; Provisional; Region: PRK06361 643562004576 TolQ protein; Region: tolQ; TIGR02796 643562004577 TolR protein; Region: tolR; TIGR02801 643562004578 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 643562004579 TonB C terminal; Region: TonB_2; pfam13103 643562004580 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 643562004581 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 643562004582 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 643562004583 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 643562004584 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 643562004585 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 643562004586 ligand binding site [chemical binding]; other site 643562004587 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 643562004588 tetramer interfaces [polypeptide binding]; other site 643562004589 binuclear metal-binding site [ion binding]; other site 643562004590 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 643562004591 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 643562004592 Coenzyme A binding pocket [chemical binding]; other site 643562004593 Maf-like protein; Region: Maf; pfam02545 643562004594 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 643562004595 active site 643562004596 dimer interface [polypeptide binding]; other site 643562004597 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 643562004598 ligand binding site [chemical binding]; other site 643562004599 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 643562004600 Glucokinase; Region: Glucokinase; cl17310 643562004601 glucokinase, proteobacterial type; Region: glk; TIGR00749 643562004602 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 643562004603 active site 643562004604 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 643562004605 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 643562004606 putative ligand binding site [chemical binding]; other site 643562004607 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 643562004608 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 643562004609 TM-ABC transporter signature motif; other site 643562004610 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 643562004611 TM-ABC transporter signature motif; other site 643562004612 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 643562004613 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 643562004614 Walker A/P-loop; other site 643562004615 ATP binding site [chemical binding]; other site 643562004616 Q-loop/lid; other site 643562004617 ABC transporter signature motif; other site 643562004618 Walker B; other site 643562004619 D-loop; other site 643562004620 H-loop/switch region; other site 643562004621 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 643562004622 dGTP triphosphohydrolase [Nucleotide transport and metabolism]; Region: Dgt; COG0232 643562004623 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 643562004624 Zn2+ binding site [ion binding]; other site 643562004625 Mg2+ binding site [ion binding]; other site 643562004626 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 643562004627 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 643562004628 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 643562004629 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 643562004630 active site 643562004631 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: PhosphMutase; cl17294 643562004632 cofactor-independent phosphoglycerate mutase; Provisional; Region: PRK04200 643562004633 homoserine dehydrogenase; Provisional; Region: PRK06349 643562004634 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 643562004635 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 643562004636 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 643562004637 aminotransferase; Validated; Region: PRK08175 643562004638 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 643562004639 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643562004640 homodimer interface [polypeptide binding]; other site 643562004641 catalytic residue [active] 643562004642 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 643562004643 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 643562004644 homodimer interface [polypeptide binding]; other site 643562004645 substrate-cofactor binding pocket; other site 643562004646 catalytic residue [active] 643562004647 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 643562004648 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 643562004649 Walker A motif; other site 643562004650 ATP binding site [chemical binding]; other site 643562004651 Walker B motif; other site 643562004652 arginine finger; other site 643562004653 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 643562004654 hypothetical protein; Validated; Region: PRK00153 643562004655 recombination protein RecR; Reviewed; Region: recR; PRK00076 643562004656 RecR protein; Region: RecR; pfam02132 643562004657 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 643562004658 putative active site [active] 643562004659 putative metal-binding site [ion binding]; other site 643562004660 tetramer interface [polypeptide binding]; other site 643562004661 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 643562004662 AAA domain; Region: AAA_30; pfam13604 643562004663 Family description; Region: UvrD_C_2; pfam13538 643562004664 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 643562004665 Ferritin-like domain; Region: Ferritin; pfam00210 643562004666 ferroxidase diiron center [ion binding]; other site 643562004667 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 643562004668 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 643562004669 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 643562004670 dimer interface [polypeptide binding]; other site 643562004671 PYR/PP interface [polypeptide binding]; other site 643562004672 TPP binding site [chemical binding]; other site 643562004673 substrate binding site [chemical binding]; other site 643562004674 2-oxoacid ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11869 643562004675 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 643562004676 TPP-binding site [chemical binding]; other site 643562004677 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 643562004678 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 643562004679 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 643562004680 Walker A/P-loop; other site 643562004681 ATP binding site [chemical binding]; other site 643562004682 Q-loop/lid; other site 643562004683 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 643562004684 ABC transporter; Region: ABC_tran_2; pfam12848 643562004685 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 643562004686 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 643562004687 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and...; Region: CBS_pair_GGDEF_assoc; cd04598 643562004688 FOG: CBS domain [General function prediction only]; Region: COG0517 643562004689 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643562004690 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643562004691 metal binding site [ion binding]; metal-binding site 643562004692 active site 643562004693 I-site; other site 643562004694 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 643562004695 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 643562004696 Acetyl-CoA carboxylase beta subunit [Lipid metabolism]; Region: AccD; COG0777 643562004697 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 643562004698 Biotin carboxylase [Lipid metabolism]; Region: AccC; COG0439 643562004699 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 643562004700 ATP-grasp domain; Region: ATP-grasp_4; cl17255 643562004701 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 643562004702 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 643562004703 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 643562004704 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 643562004705 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 643562004706 CHASE2 domain; Region: CHASE2; pfam05226 643562004707 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 643562004708 cyclase homology domain; Region: CHD; cd07302 643562004709 nucleotidyl binding site; other site 643562004710 metal binding site [ion binding]; metal-binding site 643562004711 dimer interface [polypeptide binding]; other site 643562004712 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 643562004713 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 643562004714 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 643562004715 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 643562004716 Walker A/P-loop; other site 643562004717 ATP binding site [chemical binding]; other site 643562004718 Q-loop/lid; other site 643562004719 ABC transporter signature motif; other site 643562004720 Walker B; other site 643562004721 D-loop; other site 643562004722 H-loop/switch region; other site 643562004723 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 643562004724 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 643562004725 Protein of unknown function (DUF1192); Region: DUF1192; pfam06698 643562004726 HlyD family secretion protein; Region: HlyD_3; pfam13437 643562004727 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 643562004728 Protein of unknown function (DUF1499); Region: DUF1499; cl01841 643562004729 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 643562004730 EamA-like transporter family; Region: EamA; pfam00892 643562004731 EamA-like transporter family; Region: EamA; pfam00892 643562004732 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 643562004733 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 643562004734 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 643562004735 dimerization interface [polypeptide binding]; other site 643562004736 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 643562004737 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643562004738 dimer interface [polypeptide binding]; other site 643562004739 putative CheW interface [polypeptide binding]; other site 643562004740 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 643562004741 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 643562004742 HTH-like domain; Region: HTH_21; pfam13276 643562004743 Integrase core domain; Region: rve; pfam00665 643562004744 Integrase core domain; Region: rve_3; pfam13683 643562004745 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 643562004746 DNA-binding interface [nucleotide binding]; DNA binding site 643562004747 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 643562004748 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 643562004749 nucleoside/Zn binding site; other site 643562004750 dimer interface [polypeptide binding]; other site 643562004751 catalytic motif [active] 643562004752 CobB/CobQ-like glutamine amidotransferase domain; Region: GATase_5; pfam13507 643562004753 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 643562004754 conserved cys residue [active] 643562004755 CTP synthetase; Validated; Region: pyrG; PRK05380 643562004756 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 643562004757 Catalytic site [active] 643562004758 active site 643562004759 UTP binding site [chemical binding]; other site 643562004760 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 643562004761 active site 643562004762 putative oxyanion hole; other site 643562004763 catalytic triad [active] 643562004764 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 643562004765 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 643562004766 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 643562004767 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 643562004768 Bacterial SH3 domain; Region: SH3_3; cl17532 643562004769 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 643562004770 OstA-like protein; Region: OstA; pfam03968 643562004771 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 643562004772 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 643562004773 Walker A/P-loop; other site 643562004774 ATP binding site [chemical binding]; other site 643562004775 Q-loop/lid; other site 643562004776 ABC transporter signature motif; other site 643562004777 Walker B; other site 643562004778 D-loop; other site 643562004779 H-loop/switch region; other site 643562004780 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 643562004781 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 643562004782 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 643562004783 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 643562004784 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...; Region: RaiA; cd00552 643562004785 30S subunit binding site; other site 643562004786 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 643562004787 active site 643562004788 phosphorylation site [posttranslational modification] 643562004789 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 643562004790 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 643562004791 active pocket/dimerization site; other site 643562004792 active site 643562004793 phosphorylation site [posttranslational modification] 643562004794 PTS system sorbose subfamily IIB component; Region: PTSIIB_sorb; pfam03830 643562004795 active site 643562004796 phosphorylation site [posttranslational modification] 643562004797 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 643562004798 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 643562004799 DHHA2 domain; Region: DHHA2; pfam02833 643562004800 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 643562004801 dihydrodipicolinate synthase; Region: dapA; TIGR00674 643562004802 dimer interface [polypeptide binding]; other site 643562004803 active site 643562004804 catalytic residue [active] 643562004805 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 643562004806 IHF - DNA interface [nucleotide binding]; other site 643562004807 IHF dimer interface [polypeptide binding]; other site 643562004808 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 643562004809 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 643562004810 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 643562004811 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643562004812 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643562004813 metal binding site [ion binding]; metal-binding site 643562004814 active site 643562004815 I-site; other site 643562004816 peptide chain release factor 2; Validated; Region: prfB; PRK00578 643562004817 PCRF domain; Region: PCRF; pfam03462 643562004818 RF-1 domain; Region: RF-1; pfam00472 643562004819 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 643562004820 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 643562004821 putative active site [active] 643562004822 catalytic triad [active] 643562004823 putative dimer interface [polypeptide binding]; other site 643562004824 FOG: CBS domain [General function prediction only]; Region: COG0517 643562004825 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 643562004826 Transporter associated domain; Region: CorC_HlyC; smart01091 643562004827 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 643562004828 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 643562004829 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 643562004830 diaminopimelate aminotransferase; Provisional; Region: PRK13983 643562004831 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like1; cd05650 643562004832 metal binding site [ion binding]; metal-binding site 643562004833 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 643562004834 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 643562004835 active site 643562004836 putative substrate binding pocket [chemical binding]; other site 643562004837 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 643562004838 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 643562004839 active site 643562004840 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 643562004841 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 643562004842 S-adenosylmethionine binding site [chemical binding]; other site 643562004843 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 643562004844 IHF dimer interface [polypeptide binding]; other site 643562004845 IHF - DNA interface [nucleotide binding]; other site 643562004846 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 643562004847 Yqey-like protein; Region: YqeY; pfam09424 643562004848 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 643562004849 MutS domain III; Region: MutS_III; pfam05192 643562004850 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 643562004851 Walker A/P-loop; other site 643562004852 ATP binding site [chemical binding]; other site 643562004853 Q-loop/lid; other site 643562004854 ABC transporter signature motif; other site 643562004855 Walker B; other site 643562004856 D-loop; other site 643562004857 H-loop/switch region; other site 643562004858 Smr domain; Region: Smr; pfam01713 643562004859 DNA primase; Validated; Region: dnaG; PRK05667 643562004860 CHC2 zinc finger; Region: zf-CHC2; cl17510 643562004861 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 643562004862 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 643562004863 active site 643562004864 metal binding site [ion binding]; metal-binding site 643562004865 interdomain interaction site; other site 643562004866 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 643562004867 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 643562004868 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 643562004869 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 643562004870 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 643562004871 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 643562004872 DNA binding residues [nucleotide binding] 643562004873 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 643562004874 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 643562004875 pyrroline-5-carboxylate reductase; Region: PLN02688 643562004876 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 643562004877 active site 643562004878 multimer interface [polypeptide binding]; other site 643562004879 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 643562004880 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 643562004881 Walker A/P-loop; other site 643562004882 ATP binding site [chemical binding]; other site 643562004883 Q-loop/lid; other site 643562004884 ABC transporter signature motif; other site 643562004885 Walker B; other site 643562004886 D-loop; other site 643562004887 H-loop/switch region; other site 643562004888 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 643562004889 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 643562004890 TM-ABC transporter signature motif; other site 643562004891 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 643562004892 zinc binding site [ion binding]; other site 643562004893 putative ligand binding site [chemical binding]; other site 643562004894 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 643562004895 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 643562004896 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 643562004897 NodB motif; other site 643562004898 putative active site [active] 643562004899 putative catalytic site [active] 643562004900 Zn binding site [ion binding]; other site 643562004901 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 643562004902 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 643562004903 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 643562004904 protein binding site [polypeptide binding]; other site 643562004905 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 643562004906 Catalytic dyad [active] 643562004907 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 643562004908 Peptidase family M23; Region: Peptidase_M23; pfam01551 643562004909 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 643562004910 endonuclease III; Region: ENDO3c; smart00478 643562004911 minor groove reading motif; other site 643562004912 helix-hairpin-helix signature motif; other site 643562004913 substrate binding pocket [chemical binding]; other site 643562004914 active site 643562004915 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 643562004916 Methyltransferase domain; Region: Methyltransf_18; pfam12847 643562004917 acetylornithine aminotransferase; Provisional; Region: PRK02627 643562004918 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 643562004919 inhibitor-cofactor binding pocket; inhibition site 643562004920 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643562004921 catalytic residue [active] 643562004922 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 643562004923 trimer interface [polypeptide binding]; other site 643562004924 active site 643562004925 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 643562004926 Na binding site [ion binding]; other site 643562004927 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 643562004928 4Fe-4S binding domain; Region: Fer4; cl02805 643562004929 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 643562004930 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 643562004931 active site 643562004932 FMN binding site [chemical binding]; other site 643562004933 substrate binding site [chemical binding]; other site 643562004934 3Fe-4S cluster binding site [ion binding]; other site 643562004935 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 643562004936 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 643562004937 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 643562004938 Glutamate synthase domain 1 [Amino acid transport and metabolism]; Region: GltB; COG0067 643562004939 Glutamine amidotransferases class-II (Gn-AT)_GlxB-type. GlxB is a glutamine amidotransferase-like protein of unknown function found in bacteria and archaea. GlxB has a structural fold similar to that of other class II glutamine amidotransferases...; Region: GlxB; cd01907 643562004940 putative active site [active] 643562004941 Archaeal-type gltB domain. This domain shares sequence similarity with a region of unknown function found in the large subunit of glutamate synthase, which is encoded by gltB and found in most bacteria and eukaryotes. It is predicted to be homologous to...; Region: arch_gltB; cd00981 643562004942 putative subunit interface; other site 643562004943 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 643562004944 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 643562004945 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 643562004946 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 643562004947 Protein export membrane protein; Region: SecD_SecF; pfam02355 643562004948 adenylate kinase; Provisional; Region: PRK14529 643562004949 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 643562004950 AMP-binding site [chemical binding]; other site 643562004951 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 643562004952 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 643562004953 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 643562004954 Ligand Binding Site [chemical binding]; other site 643562004955 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 643562004956 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 643562004957 tRNA; other site 643562004958 putative tRNA binding site [nucleotide binding]; other site 643562004959 putative NADP binding site [chemical binding]; other site 643562004960 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 643562004961 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 643562004962 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 643562004963 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 643562004964 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 643562004965 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 643562004966 DUF based on E. rectale Gene description (DUF3880); Region: DUF3880; pfam12996 643562004967 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 643562004968 recombination factor protein RarA; Reviewed; Region: PRK13342 643562004969 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 643562004970 Walker A motif; other site 643562004971 ATP binding site [chemical binding]; other site 643562004972 Walker B motif; other site 643562004973 arginine finger; other site 643562004974 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 643562004975 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 643562004976 diaminopimelate decarboxylase; Region: lysA; TIGR01048 643562004977 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 643562004978 active site 643562004979 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 643562004980 substrate binding site [chemical binding]; other site 643562004981 catalytic residues [active] 643562004982 dimer interface [polypeptide binding]; other site 643562004983 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 643562004984 MutS domain I; Region: MutS_I; pfam01624 643562004985 MutS domain II; Region: MutS_II; pfam05188 643562004986 MutS domain III; Region: MutS_III; pfam05192 643562004987 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 643562004988 Walker A/P-loop; other site 643562004989 ATP binding site [chemical binding]; other site 643562004990 Q-loop/lid; other site 643562004991 ABC transporter signature motif; other site 643562004992 Walker B; other site 643562004993 D-loop; other site 643562004994 H-loop/switch region; other site 643562004995 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 643562004996 TPR motif; other site 643562004997 binding surface 643562004998 tetratricopeptide repeat protein; Provisional; Region: PRK11788 643562004999 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 643562005000 FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275 643562005001 nucleotide binding site/active site [active] 643562005002 HIT family signature motif; other site 643562005003 catalytic residue [active] 643562005004 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 643562005005 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 643562005006 FOG: CBS domain [General function prediction only]; Region: COG0517 643562005007 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with an upstream DHH domain which performs a phosphoesterase function and a downstream polyA polymerase domain. CBS is a small domain originally...; Region: CBS_pair_DHH_polyA_Pol_assoc; cd04595 643562005008 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 643562005009 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 643562005010 active site 643562005011 NTP binding site [chemical binding]; other site 643562005012 metal binding triad [ion binding]; metal-binding site 643562005013 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 643562005014 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 643562005015 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 643562005016 active site 643562005017 DNA binding site [nucleotide binding] 643562005018 Int/Topo IB signature motif; other site 643562005019 LL-diaminopimelate aminotransferase; Provisional; Region: PRK09276 643562005020 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 643562005021 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643562005022 homodimer interface [polypeptide binding]; other site 643562005023 catalytic residue [active] 643562005024 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 643562005025 Tetratricopeptide repeat; Region: TPR_12; pfam13424 643562005026 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_cladeC; cd03378 643562005027 active site clefts [active] 643562005028 zinc binding site [ion binding]; other site 643562005029 dimer interface [polypeptide binding]; other site 643562005030 Preprotein translocase SecG subunit; Region: SecG; pfam03840 643562005031 triosephosphate isomerase; Provisional; Region: PRK14567 643562005032 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 643562005033 substrate binding site [chemical binding]; other site 643562005034 dimer interface [polypeptide binding]; other site 643562005035 catalytic triad [active] 643562005036 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 643562005037 Phosphoglycerate kinase; Region: PGK; pfam00162 643562005038 substrate binding site [chemical binding]; other site 643562005039 hinge regions; other site 643562005040 ADP binding site [chemical binding]; other site 643562005041 catalytic site [active] 643562005042 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 643562005043 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 643562005044 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 643562005045 isopentenyl-diphosphate delta-isomerase, type 1; Region: IPP_isom_1; TIGR02150 643562005046 nudix motif; other site 643562005047 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 643562005048 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 643562005049 active site 643562005050 dimerization interface [polypeptide binding]; other site 643562005051 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 643562005052 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 643562005053 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 643562005054 putative acyl-acceptor binding pocket; other site 643562005055 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 643562005056 SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response...; Region: SirA_like_N; cd03421 643562005057 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 643562005058 CPxP motif; other site 643562005059 DsrE/DsrF-like family; Region: DrsE; pfam02635 643562005060 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 643562005061 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 643562005062 RNA binding surface [nucleotide binding]; other site 643562005063 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 643562005064 active site 643562005065 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 643562005066 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 643562005067 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 643562005068 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 643562005069 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 643562005070 elongation factor P; Validated; Region: PRK00529 643562005071 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 643562005072 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 643562005073 RNA binding site [nucleotide binding]; other site 643562005074 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 643562005075 RNA binding site [nucleotide binding]; other site 643562005076 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 643562005077 Dehydroquinase class II; Region: DHquinase_II; pfam01220 643562005078 trimer interface [polypeptide binding]; other site 643562005079 active site 643562005080 dimer interface [polypeptide binding]; other site 643562005081 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 643562005082 G1 box; other site 643562005083 GTP/Mg2+ binding site [chemical binding]; other site 643562005084 Switch I region; other site 643562005085 G2 box; other site 643562005086 G3 box; other site 643562005087 Switch II region; other site 643562005088 G4 box; other site 643562005089 G5 box; other site 643562005090 Predicted permeases [General function prediction only]; Region: COG0795 643562005091 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 643562005092 Predicted permeases [General function prediction only]; Region: COG0795 643562005093 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 643562005094 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 643562005095 Superoxide reductase-like (SORL) domain; present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals as a defense mechanism...; Region: SORL; cl00014 643562005096 non-heme iron binding site [ion binding]; other site 643562005097 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 643562005098 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 643562005099 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 643562005100 catalytic residues [active] 643562005101 catalytic nucleophile [active] 643562005102 Presynaptic Site I dimer interface [polypeptide binding]; other site 643562005103 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 643562005104 Synaptic Flat tetramer interface [polypeptide binding]; other site 643562005105 Synaptic Site I dimer interface [polypeptide binding]; other site 643562005106 DNA binding site [nucleotide binding] 643562005107 Recombinase; Region: Recombinase; pfam07508 643562005108 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 643562005109 Protein of unknown function (DUF2924); Region: DUF2924; pfam11149 643562005110 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 643562005111 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 643562005112 Ligand Binding Site [chemical binding]; other site 643562005113 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 643562005114 Sugar-specific transcriptional regulator TrmB; Region: TrmB; cl17775 643562005115 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 643562005116 AAA domain; Region: AAA_24; pfam13479 643562005117 Protein of unknown function (DUF669); Region: DUF669; pfam05037 643562005118 ERCC4 domain; Region: ERCC4; smart00891 643562005119 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 643562005120 AAA domain; Region: AAA_30; pfam13604 643562005121 Family description; Region: UvrD_C_2; pfam13538 643562005122 DNA primase, catalytic core; Region: dnaG; TIGR01391 643562005123 CHC2 zinc finger; Region: zf-CHC2; cl17510 643562005124 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 643562005125 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 643562005126 active site 643562005127 metal binding site [ion binding]; metal-binding site 643562005128 interdomain interaction site; other site 643562005129 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 643562005130 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 643562005131 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 643562005132 active site 643562005133 DNA binding site [nucleotide binding] 643562005134 Int/Topo IB signature motif; other site 643562005135 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 643562005136 Terminase-like family; Region: Terminase_6; pfam03237 643562005137 Phage portal protein; Region: Phage_portal; pfam04860 643562005138 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 643562005139 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 643562005140 Radical SAM superfamily; Region: Radical_SAM; pfam04055 643562005141 FeS/SAM binding site; other site 643562005142 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 643562005143 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 643562005144 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cd00688 643562005145 Aspartyl/asparaginyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: AsnS; COG0017 643562005146 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...; Region: class_II_aaRS-like_core; cl00268 643562005147 motif 1; other site 643562005148 dimer interface [polypeptide binding]; other site 643562005149 active site 643562005150 motif 2; other site 643562005151 motif 3; other site 643562005152 active site 643562005153 Amidohydrolase; Region: Amidohydro_2; pfam04909 643562005154 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 643562005155 Coenzyme A binding pocket [chemical binding]; other site 643562005156 radical SAM/SPASM domain protein, ACGX system; Region: rSAM_ACGX; TIGR04340 643562005157 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 643562005158 FeS/SAM binding site; other site 643562005159 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 643562005160 Helix-turn-helix domain; Region: HTH_17; pfam12728 643562005161 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 643562005162 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 643562005163 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 643562005164 tail sheath protein; Provisional; Region: 18; PHA02539 643562005165 tail sheath protein; Provisional; Region: 18; PHA02539 643562005166 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; pfam06841 643562005167 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 643562005168 Phage-related protein [Function unknown]; Region: COG5412 643562005169 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK12571 643562005170 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 643562005171 Phage protein D [General function prediction only]; Region: COG3500 643562005172 Peptidase M15; Region: Peptidase_M15_3; cl01194 643562005173 Protein of unknown function (DUF1353); Region: DUF1353; pfam07087 643562005174 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 643562005175 PAAR motif; Region: PAAR_motif; pfam05488 643562005176 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 643562005177 Gene 25-like lysozyme; Region: GPW_gp25; pfam04965 643562005178 conserved hypothetical protein, phage tail-like region; Region: TIGR02243 643562005179 conserved hypothetical protein, phage tail-like region; Region: TIGR02243 643562005180 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; pfam09684 643562005181 NADH dehydrogenase subunit G; Validated; Region: PRK08166 643562005182 Putative amidoligase enzyme; Region: Amidoligase_2; pfam12224 643562005183 GTPase of unknown function C-terminal; Region: MMR_HSR1_C; pfam08438 643562005184 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; cd00352 643562005185 active site 643562005186 Glutamine amidotransferase domain; Region: GATase_6; pfam13522 643562005187 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 643562005188 putative active site pocket [active] 643562005189 dimerization interface [polypeptide binding]; other site 643562005190 putative catalytic residue [active] 643562005191 DNA binding domain, excisionase family; Region: excise; TIGR01764 643562005192 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 643562005193 Walker A motif; other site 643562005194 ATP binding site [chemical binding]; other site 643562005195 Walker B motif; other site 643562005196 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 643562005197 Divergent AAA domain; Region: AAA_4; pfam04326 643562005198 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 643562005199 DNA methylase; Region: N6_N4_Mtase; cl17433 643562005200 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 643562005201 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 643562005202 ATP binding site [chemical binding]; other site 643562005203 putative Mg++ binding site [ion binding]; other site 643562005204 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 643562005205 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 643562005206 nucleotide binding region [chemical binding]; other site 643562005207 ATP-binding site [chemical binding]; other site 643562005208 PglZ domain; Region: PglZ; pfam08665 643562005209 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 643562005210 Mechanosensitive ion channel; Region: MS_channel; pfam00924 643562005211 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 643562005212 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 643562005213 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 643562005214 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 643562005215 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 643562005216 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 643562005217 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 643562005218 This family is most closely related to the GT1 family of glycosyltransferases. UDP-glucose-diacylglycerol glucosyltransferase (UGDG; also known as 1,2-diacylglycerol 3-glucosyltransferase) catalyzes the transfer of glucose from UDP-glucose to 1; Region: GT1_UGDG_like; cd03817 643562005219 putative ADP-binding pocket [chemical binding]; other site 643562005220 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 643562005221 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 643562005222 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 643562005223 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 643562005224 ATP binding site [chemical binding]; other site 643562005225 putative Mg++ binding site [ion binding]; other site 643562005226 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 643562005227 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 643562005228 PAS domain S-box; Region: sensory_box; TIGR00229 643562005229 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 643562005230 putative active site [active] 643562005231 heme pocket [chemical binding]; other site 643562005232 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 643562005233 dimer interface [polypeptide binding]; other site 643562005234 phosphorylation site [posttranslational modification] 643562005235 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 643562005236 ATP binding site [chemical binding]; other site 643562005237 Mg2+ binding site [ion binding]; other site 643562005238 G-X-G motif; other site 643562005239 Response regulator receiver domain; Region: Response_reg; pfam00072 643562005240 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 643562005241 active site 643562005242 phosphorylation site [posttranslational modification] 643562005243 intermolecular recognition site; other site 643562005244 dimerization interface [polypeptide binding]; other site 643562005245 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 643562005246 flagellar motor protein MotS; Reviewed; Region: PRK06925 643562005247 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 643562005248 ligand binding site [chemical binding]; other site 643562005249 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 643562005250 flagellar motor protein MotS; Reviewed; Region: PRK06925 643562005251 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 643562005252 ligand binding site [chemical binding]; other site 643562005253 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 643562005254 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 643562005255 Protein of unknown function (DUF342); Region: DUF342; pfam03961 643562005256 FlaG protein; Region: FlaG; pfam03646 643562005257 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 643562005258 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 643562005259 Phosphohistidine swiveling domain [Signal transduction mechanisms]; Region: COG3848 643562005260 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 643562005261 pyruvate carboxylase; Reviewed; Region: PRK12999 643562005262 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 643562005263 ATP-grasp domain; Region: ATP-grasp_4; cl17255 643562005264 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 643562005265 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 643562005266 active site 643562005267 catalytic residues [active] 643562005268 metal binding site [ion binding]; metal-binding site 643562005269 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 643562005270 carboxyltransferase (CT) interaction site; other site 643562005271 biotinylation site [posttranslational modification]; other site 643562005272 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 643562005273 Double zinc ribbon; Region: DZR; pfam12773 643562005274 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 643562005275 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 643562005276 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 643562005277 metal binding triad [ion binding]; metal-binding site 643562005278 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 643562005279 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 643562005280 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 643562005281 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 643562005282 active site 643562005283 phosphorylation site [posttranslational modification] 643562005284 intermolecular recognition site; other site 643562005285 dimerization interface [polypeptide binding]; other site 643562005286 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 643562005287 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 643562005288 CoA-ligase; Region: Ligase_CoA; pfam00549 643562005289 CoA binding domain; Region: CoA_binding; smart00881 643562005290 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 643562005291 CoA-ligase; Region: Ligase_CoA; pfam00549 643562005292 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 643562005293 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 643562005294 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 643562005295 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 643562005296 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 643562005297 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 643562005298 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 643562005299 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 643562005300 Walker A/P-loop; other site 643562005301 ATP binding site [chemical binding]; other site 643562005302 Q-loop/lid; other site 643562005303 ABC transporter signature motif; other site 643562005304 Walker B; other site 643562005305 D-loop; other site 643562005306 H-loop/switch region; other site 643562005307 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 643562005308 Smr domain; Region: Smr; pfam01713 643562005309 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 643562005310 putative CheA interaction surface; other site 643562005311 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 643562005312 Acetolactate synthase, small (regulatory) subunit [Amino acid transport and metabolism]; Region: IlvH; COG0440 643562005313 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 643562005314 putative valine binding site [chemical binding]; other site 643562005315 dimer interface [polypeptide binding]; other site 643562005316 acetolactate synthase catalytic subunit; Validated; Region: PRK08155 643562005317 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 643562005318 PYR/PP interface [polypeptide binding]; other site 643562005319 dimer interface [polypeptide binding]; other site 643562005320 TPP binding site [chemical binding]; other site 643562005321 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 643562005322 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 643562005323 TPP-binding site [chemical binding]; other site 643562005324 dimer interface [polypeptide binding]; other site 643562005325 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 643562005326 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 643562005327 AAA domain; Region: AAA_32; pfam13654 643562005328 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 643562005329 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 643562005330 This domain family includes the alpha-crystallin domain (ACD) of alpha-crystallin-type small heat shock proteins (sHsps) and a similar domain found in p23-like proteins. sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa; Region: ACD_sHsps_p23-like; cd00298 643562005331 response regulator PleD; Reviewed; Region: pleD; PRK09581 643562005332 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 643562005333 active site 643562005334 phosphorylation site [posttranslational modification] 643562005335 intermolecular recognition site; other site 643562005336 dimerization interface [polypeptide binding]; other site 643562005337 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 643562005338 putative active site [active] 643562005339 heme pocket [chemical binding]; other site 643562005340 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643562005341 metal binding site [ion binding]; metal-binding site 643562005342 active site 643562005343 I-site; other site 643562005344 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 643562005345 Protein of unknown function (DUF493); Region: DUF493; pfam04359 643562005346 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 643562005347 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 643562005348 trimerization site [polypeptide binding]; other site 643562005349 active site 643562005350 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 643562005351 NifU-like domain; Region: NifU; pfam01106 643562005352 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 643562005353 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 643562005354 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 643562005355 catalytic residue [active] 643562005356 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 643562005357 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 643562005358 dimer interface [polypeptide binding]; other site 643562005359 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643562005360 catalytic residue [active] 643562005361 serine O-acetyltransferase; Region: cysE; TIGR01172 643562005362 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 643562005363 trimer interface [polypeptide binding]; other site 643562005364 active site 643562005365 substrate binding site [chemical binding]; other site 643562005366 CoA binding site [chemical binding]; other site 643562005367 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 643562005368 TPR repeat; Region: TPR_11; pfam13414 643562005369 TPR motif; other site 643562005370 binding surface 643562005371 TPR repeat; Region: TPR_11; pfam13414 643562005372 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 643562005373 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 643562005374 active site 643562005375 HIGH motif; other site 643562005376 nucleotide binding site [chemical binding]; other site 643562005377 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 643562005378 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 643562005379 active site 643562005380 KMSKS motif; other site 643562005381 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 643562005382 tRNA binding surface [nucleotide binding]; other site 643562005383 anticodon binding site; other site 643562005384 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 643562005385 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 643562005386 lipoprotein signal peptidase; Provisional; Region: PRK14787 643562005387 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 643562005388 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 643562005389 NIL domain; Region: NIL; pfam09383 643562005390 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 643562005391 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 643562005392 PilZ domain; Region: PilZ; pfam07238 643562005393 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 643562005394 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 643562005395 MgtE intracellular N domain; Region: MgtE_N; pfam03448 643562005396 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 643562005397 Divalent cation transporter; Region: MgtE; pfam01769 643562005398 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 643562005399 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 643562005400 dimerization interface [polypeptide binding]; other site 643562005401 active site 643562005402 quinolinate synthetase; Provisional; Region: PRK09375 643562005403 L-aspartate oxidase; Provisional; Region: PRK06175 643562005404 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 643562005405 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 643562005406 Cation transport protein; Region: TrkH; cl17365 643562005407 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 643562005408 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 643562005409 TrkA-N domain; Region: TrkA_N; pfam02254 643562005410 TrkA-C domain; Region: TrkA_C; pfam02080 643562005411 TrkA-N domain; Region: TrkA_N; pfam02254 643562005412 TrkA-C domain; Region: TrkA_C; pfam02080 643562005413 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 643562005414 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 643562005415 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 643562005416 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 643562005417 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 643562005418 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 643562005419 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 643562005420 ligand binding site [chemical binding]; other site 643562005421 flexible hinge region; other site 643562005422 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 643562005423 putative switch regulator; other site 643562005424 non-specific DNA interactions [nucleotide binding]; other site 643562005425 DNA binding site [nucleotide binding] 643562005426 sequence specific DNA binding site [nucleotide binding]; other site 643562005427 putative cAMP binding site [chemical binding]; other site 643562005428 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 643562005429 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 643562005430 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 643562005431 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 643562005432 dimer interface [polypeptide binding]; other site 643562005433 motif 1; other site 643562005434 active site 643562005435 motif 2; other site 643562005436 motif 3; other site 643562005437 Recombination protein O N terminal; Region: RecO_N; pfam11967 643562005438 DNA repair protein RecO; Region: reco; TIGR00613 643562005439 Recombination protein O C terminal; Region: RecO_C; pfam02565 643562005440 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 643562005441 non-specific DNA binding site [nucleotide binding]; other site 643562005442 salt bridge; other site 643562005443 sequence-specific DNA binding site [nucleotide binding]; other site 643562005444 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 643562005445 SurA N-terminal domain; Region: SurA_N; pfam09312 643562005446 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 643562005447 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 643562005448 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 643562005449 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 643562005450 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 643562005451 ATP binding site [chemical binding]; other site 643562005452 putative Mg++ binding site [ion binding]; other site 643562005453 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 643562005454 nucleotide binding region [chemical binding]; other site 643562005455 ATP-binding site [chemical binding]; other site 643562005456 TRCF domain; Region: TRCF; pfam03461 643562005457 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 643562005458 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 643562005459 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 643562005460 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 643562005461 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 643562005462 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...; Region: PNPsynthase; cd00003 643562005463 active site 643562005464 hydrophilic channel; other site 643562005465 dimerization interface [polypeptide binding]; other site 643562005466 catalytic residues [active] 643562005467 active site lid [active] 643562005468 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK14657 643562005469 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 643562005470 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 643562005471 putative substrate binding site [chemical binding]; other site 643562005472 putative ATP binding site [chemical binding]; other site 643562005473 FOG: CBS domain [General function prediction only]; Region: COG0517 643562005474 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 643562005475 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 643562005476 aspartate kinase; Reviewed; Region: PRK06635 643562005477 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 643562005478 putative nucleotide binding site [chemical binding]; other site 643562005479 putative catalytic residues [active] 643562005480 putative Mg ion binding site [ion binding]; other site 643562005481 putative aspartate binding site [chemical binding]; other site 643562005482 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 643562005483 putative allosteric regulatory site; other site 643562005484 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 643562005485 putative allosteric regulatory residue; other site 643562005486 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 643562005487 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 643562005488 active site 643562005489 catalytic residues [active] 643562005490 metal binding site [ion binding]; metal-binding site 643562005491 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 643562005492 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 643562005493 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 643562005494 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 643562005495 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 643562005496 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 643562005497 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 643562005498 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 643562005499 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is...; Region: YhaM_OBF_like; cd04492 643562005500 generic binding surface II; other site 643562005501 generic binding surface I; other site 643562005502 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 643562005503 Zn2+ binding site [ion binding]; other site 643562005504 Mg2+ binding site [ion binding]; other site 643562005505 thymidylate kinase; Validated; Region: tmk; PRK00698 643562005506 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 643562005507 TMP-binding site; other site 643562005508 ATP-binding site [chemical binding]; other site 643562005509 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 643562005510 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643562005511 dimer interface [polypeptide binding]; other site 643562005512 conserved gate region; other site 643562005513 putative PBP binding loops; other site 643562005514 ABC-ATPase subunit interface; other site 643562005515 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 643562005516 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 643562005517 substrate binding pocket [chemical binding]; other site 643562005518 membrane-bound complex binding site; other site 643562005519 hinge residues; other site 643562005520 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 643562005521 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643562005522 dimer interface [polypeptide binding]; other site 643562005523 conserved gate region; other site 643562005524 putative PBP binding loops; other site 643562005525 ABC-ATPase subunit interface; other site 643562005526 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 643562005527 catalytic residues [active] 643562005528 Ferredoxin thioredoxin reductase catalytic beta chain; Region: FeThRed_B; cl01977 643562005529 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 643562005530 protein binding site [polypeptide binding]; other site 643562005531 Peptidase family M48; Region: Peptidase_M48; cl12018 643562005532 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 643562005533 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 643562005534 homodimer interface [polypeptide binding]; other site 643562005535 substrate-cofactor binding pocket; other site 643562005536 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643562005537 catalytic residue [active] 643562005538 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 643562005539 Glucose inhibited division protein A; Region: GIDA; pfam01134 643562005540 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 643562005541 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 643562005542 Walker A/P-loop; other site 643562005543 ATP binding site [chemical binding]; other site 643562005544 Q-loop/lid; other site 643562005545 ABC transporter signature motif; other site 643562005546 Walker B; other site 643562005547 D-loop; other site 643562005548 H-loop/switch region; other site 643562005549 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 643562005550 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 643562005551 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 643562005552 Walker A/P-loop; other site 643562005553 ATP binding site [chemical binding]; other site 643562005554 Q-loop/lid; other site 643562005555 ABC transporter signature motif; other site 643562005556 Walker B; other site 643562005557 D-loop; other site 643562005558 H-loop/switch region; other site 643562005559 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 643562005560 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 643562005561 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 643562005562 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 643562005563 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 643562005564 Walker A/P-loop; other site 643562005565 ATP binding site [chemical binding]; other site 643562005566 Q-loop/lid; other site 643562005567 ABC transporter signature motif; other site 643562005568 Walker B; other site 643562005569 D-loop; other site 643562005570 H-loop/switch region; other site 643562005571 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 643562005572 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 643562005573 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 643562005574 Uncharacterized conserved protein [Function unknown]; Region: COG3379 643562005575 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 643562005576 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 643562005577 Part of AAA domain; Region: AAA_19; pfam13245 643562005578 Family description; Region: UvrD_C_2; pfam13538 643562005579 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 643562005580 ATP binding site [chemical binding]; other site 643562005581 thiamine monophosphate kinase; Provisional; Region: PRK05731 643562005582 dimerization interface [polypeptide binding]; other site 643562005583 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 643562005584 homodimer interaction site [polypeptide binding]; other site 643562005585 cofactor binding site; other site 643562005586 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 643562005587 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 643562005588 hypothetical protein; Provisional; Region: PRK04164 643562005589 ketol-acid reductoisomerase; Provisional; Region: PRK05479 643562005590 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 643562005591 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 643562005592 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 643562005593 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 643562005594 putative valine binding site [chemical binding]; other site 643562005595 dimer interface [polypeptide binding]; other site 643562005596 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 643562005597 acetolactate synthase 3 catalytic subunit; Reviewed; Region: PRK06048 643562005598 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 643562005599 PYR/PP interface [polypeptide binding]; other site 643562005600 dimer interface [polypeptide binding]; other site 643562005601 TPP binding site [chemical binding]; other site 643562005602 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 643562005603 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 643562005604 TPP-binding site [chemical binding]; other site 643562005605 dimer interface [polypeptide binding]; other site 643562005606 Uncharacterized ACR, YggU family COG1872; Region: DUF167; pfam02594 643562005607 DivIVA protein; Region: DivIVA; pfam05103 643562005608 YGGT family; Region: YGGT; pfam02325 643562005609 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 643562005610 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 643562005611 active site 643562005612 motif I; other site 643562005613 motif II; other site 643562005614 twin arginine translocase protein A; Provisional; Region: tatA; PRK14859 643562005615 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 643562005616 catalytic core [active] 643562005617 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 643562005618 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 643562005619 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 643562005620 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 643562005621 active site 643562005622 (T/H)XGH motif; other site 643562005623 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 643562005624 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 643562005625 S-adenosylmethionine binding site [chemical binding]; other site 643562005626 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 643562005627 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 643562005628 Beta-Casp domain; Region: Beta-Casp; smart01027 643562005629 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 643562005630 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 643562005631 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 643562005632 EamA-like transporter family; Region: EamA; pfam00892 643562005633 EamA-like transporter family; Region: EamA; pfam00892 643562005634 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643562005635 dimer interface [polypeptide binding]; other site 643562005636 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 643562005637 putative CheW interface [polypeptide binding]; other site 643562005638 EAL-domain associated signalling protein domain; Region: YkuI_C; pfam10388 643562005639 Cache domain; Region: Cache_1; pfam02743 643562005640 phosphoglyceromutase; Provisional; Region: PRK05434 643562005641 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 643562005642 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 643562005643 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 643562005644 FMN binding site [chemical binding]; other site 643562005645 dimer interface [polypeptide binding]; other site 643562005646 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 643562005647 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 643562005648 acyl-activating enzyme (AAE) consensus motif; other site 643562005649 AMP binding site [chemical binding]; other site 643562005650 active site 643562005651 CoA binding site [chemical binding]; other site 643562005652 ACT domain-containing protein [General function prediction only]; Region: COG4747 643562005653 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 643562005654 C-terminal ACT domain of a novel protein composed of just two ACT domains; Region: ACT_Bt0572_2; cd04882 643562005655 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 643562005656 hypothetical protein; Reviewed; Region: PRK09588 643562005657 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 643562005658 putative binding surface; other site 643562005659 active site 643562005660 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 643562005661 putative acyl-acceptor binding pocket; other site 643562005662 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 643562005663 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 643562005664 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 643562005665 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 643562005666 Putative catalytic domain, repeat 1, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_1; cd09155 643562005667 putative active site [active] 643562005668 catalytic site [active] 643562005669 Putative catalytic domain, repeat 2, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_2; cd09161 643562005670 putative active site [active] 643562005671 catalytic site [active] 643562005672 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 643562005673 dihydrodipicolinate reductase; Provisional; Region: PRK00048 643562005674 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 643562005675 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 643562005676 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 643562005677 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 643562005678 nucleotide binding pocket [chemical binding]; other site 643562005679 K-X-D-G motif; other site 643562005680 catalytic site [active] 643562005681 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 643562005682 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 643562005683 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 643562005684 Dimer interface [polypeptide binding]; other site 643562005685 BRCT sequence motif; other site 643562005686 excinuclease ABC subunit B; Provisional; Region: PRK05298 643562005687 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 643562005688 ATP binding site [chemical binding]; other site 643562005689 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 643562005690 nucleotide binding region [chemical binding]; other site 643562005691 ATP-binding site [chemical binding]; other site 643562005692 Ultra-violet resistance protein B; Region: UvrB; pfam12344 643562005693 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 643562005694 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 643562005695 Clp amino terminal domain; Region: Clp_N; pfam02861 643562005696 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 643562005697 Walker A motif; other site 643562005698 ATP binding site [chemical binding]; other site 643562005699 Walker B motif; other site 643562005700 arginine finger; other site 643562005701 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 643562005702 Walker A motif; other site 643562005703 ATP binding site [chemical binding]; other site 643562005704 Walker B motif; other site 643562005705 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 643562005706 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; pfam02617 643562005707 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 643562005708 putative active site [active] 643562005709 putative metal binding residues [ion binding]; other site 643562005710 signature motif; other site 643562005711 putative triphosphate binding site [ion binding]; other site 643562005712 dimer interface [polypeptide binding]; other site 643562005713 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 643562005714 PII-like signaling protein [Signal transduction mechanisms]; Region: COG1993 643562005715 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 643562005716 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 643562005717 active site 643562005718 phosphorylation site [posttranslational modification] 643562005719 intermolecular recognition site; other site 643562005720 dimerization interface [polypeptide binding]; other site 643562005721 CheB methylesterase; Region: CheB_methylest; pfam01339 643562005722 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 643562005723 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 643562005724 putative binding surface; other site 643562005725 active site 643562005726 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 643562005727 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 643562005728 ATP binding site [chemical binding]; other site 643562005729 Mg2+ binding site [ion binding]; other site 643562005730 G-X-G motif; other site 643562005731 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 643562005732 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 643562005733 PAS domain; Region: PAS_9; pfam13426 643562005734 putative active site [active] 643562005735 heme pocket [chemical binding]; other site 643562005736 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 643562005737 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643562005738 dimer interface [polypeptide binding]; other site 643562005739 putative CheW interface [polypeptide binding]; other site 643562005740 Heme NO binding; Region: HNOB; pfam07700 643562005741 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 643562005742 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 643562005743 elongation factor G; Reviewed; Region: PRK12740 643562005744 G1 box; other site 643562005745 putative GEF interaction site [polypeptide binding]; other site 643562005746 GTP/Mg2+ binding site [chemical binding]; other site 643562005747 Switch I region; other site 643562005748 G2 box; other site 643562005749 G3 box; other site 643562005750 Switch II region; other site 643562005751 G4 box; other site 643562005752 G5 box; other site 643562005753 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 643562005754 Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily...; Region: EFG_like_IV; cd01680 643562005755 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 643562005756 Outer membrane lipoprotein; Region: YfiO; pfam13525 643562005757 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 643562005758 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 643562005759 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 643562005760 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 643562005761 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 643562005762 catalytic residues [active] 643562005763 UGMP family protein; Validated; Region: PRK09604 643562005764 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 643562005765 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 643562005766 AMP binding site [chemical binding]; other site 643562005767 metal binding site [ion binding]; metal-binding site 643562005768 active site 643562005769 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 643562005770 TPR motif; other site 643562005771 binding surface 643562005772 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 643562005773 Septum formation initiator; Region: DivIC; pfam04977 643562005774 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 643562005775 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 643562005776 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 643562005777 Domain of unknown function (DUF368); Region: DUF368; pfam04018 643562005778 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 643562005779 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; cl17173 643562005780 S-adenosylmethionine binding site [chemical binding]; other site 643562005781 FOG: CBS domain [General function prediction only]; Region: COG0517 643562005782 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 643562005783 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 643562005784 Peptidase family M23; Region: Peptidase_M23; pfam01551 643562005785 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 643562005786 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 643562005787 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 643562005788 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 643562005789 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 643562005790 active site 643562005791 catalytic motif [active] 643562005792 Zn binding site [ion binding]; other site 643562005793 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 643562005794 Found in ATP-dependent protease La (LON); Region: LON; smart00464 643562005795 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 643562005796 Walker A motif; other site 643562005797 ATP binding site [chemical binding]; other site 643562005798 Walker B motif; other site 643562005799 arginine finger; other site 643562005800 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 643562005801 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 643562005802 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 643562005803 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 643562005804 Walker A motif; other site 643562005805 ATP binding site [chemical binding]; other site 643562005806 Walker B motif; other site 643562005807 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 643562005808 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 643562005809 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 643562005810 oligomer interface [polypeptide binding]; other site 643562005811 active site residues [active] 643562005812 trigger factor; Region: tig; TIGR00115 643562005813 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 643562005814 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 643562005815 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 643562005816 dimer interface [polypeptide binding]; other site 643562005817 substrate binding site [chemical binding]; other site 643562005818 phosphomethylpyrimidine kinase; Provisional; Region: PRK08573 643562005819 ATP binding site [chemical binding]; other site 643562005820 Putative aldolase; Region: Aldolase_2; cl00871 643562005821 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 643562005822 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 643562005823 DNA binding residues [nucleotide binding] 643562005824 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 643562005825 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 643562005826 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 643562005827 putative dimer interface [polypeptide binding]; other site 643562005828 putative anticodon binding site; other site 643562005829 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 643562005830 homodimer interface [polypeptide binding]; other site 643562005831 motif 1; other site 643562005832 motif 2; other site 643562005833 active site 643562005834 motif 3; other site 643562005835 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 643562005836 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 643562005837 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 643562005838 P loop; other site 643562005839 GTP binding site [chemical binding]; other site 643562005840 30S ribosomal protein S1; Provisional; Region: rpsA; PRK13806 643562005841 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...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 643562005842 RNA binding site [nucleotide binding]; other site 643562005843 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...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 643562005844 RNA binding site [nucleotide binding]; other site 643562005845 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 643562005846 RNA binding site [nucleotide binding]; other site 643562005847 domain interface; other site 643562005848 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...; Region: S1_RPS1_repeat_ec3; cd05688 643562005849 RNA binding site [nucleotide binding]; other site 643562005850 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; cd00164 643562005851 RNA binding site [nucleotide binding]; other site 643562005852 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 643562005853 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 643562005854 RNA binding surface [nucleotide binding]; other site 643562005855 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 643562005856 active site 643562005857 EamA-like transporter family; Region: EamA; pfam00892 643562005858 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 643562005859 EamA-like transporter family; Region: EamA; pfam00892 643562005860 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 643562005861 Family description; Region: UvrD_C_2; pfam13538 643562005862 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 643562005863 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 643562005864 trimer interface [polypeptide binding]; other site 643562005865 putative Zn binding site [ion binding]; other site 643562005866 Predicted dehydrogenase [General function prediction only]; Region: COG0579 643562005867 hydroxyglutarate oxidase; Provisional; Region: PRK11728 643562005868 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 643562005869 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 643562005870 FMN binding site [chemical binding]; other site 643562005871 substrate binding site [chemical binding]; other site 643562005872 putative catalytic residue [active] 643562005873 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 643562005874 active site 643562005875 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 643562005876 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 643562005877 active site 643562005878 Int/Topo IB signature motif; other site 643562005879 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 643562005880 active site 643562005881 phosphorylation site [posttranslational modification] 643562005882 intermolecular recognition site; other site 643562005883 dimerization interface [polypeptide binding]; other site 643562005884 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643562005885 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643562005886 metal binding site [ion binding]; metal-binding site 643562005887 active site 643562005888 I-site; other site 643562005889 HDOD domain; Region: HDOD; pfam08668 643562005890 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 643562005891 Zn2+ binding site [ion binding]; other site 643562005892 Mg2+ binding site [ion binding]; other site 643562005893 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 643562005894 DNA protecting protein DprA; Region: dprA; TIGR00732 643562005895 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 643562005896 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 643562005897 binding surface 643562005898 TPR motif; other site 643562005899 Cation efflux family; Region: Cation_efflux; pfam01545 643562005900 HlyD family secretion protein; Region: HlyD_3; pfam13437 643562005901 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 643562005902 putative binding surface; other site 643562005903 active site 643562005904 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 643562005905 putative binding surface; other site 643562005906 active site 643562005907 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 643562005908 putative binding surface; other site 643562005909 active site 643562005910 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 643562005911 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 643562005912 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 643562005913 ATP binding site [chemical binding]; other site 643562005914 Mg2+ binding site [ion binding]; other site 643562005915 G-X-G motif; other site 643562005916 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 643562005917 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 643562005918 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 643562005919 active site 643562005920 phosphorylation site [posttranslational modification] 643562005921 intermolecular recognition site; other site 643562005922 dimerization interface [polypeptide binding]; other site 643562005923 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 643562005924 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 643562005925 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 643562005926 S-adenosylmethionine binding site [chemical binding]; other site 643562005927 HEAT repeats; Region: HEAT_2; pfam13646 643562005928 HEAT repeats; Region: HEAT_2; pfam13646 643562005929 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 643562005930 HEAT repeats; Region: HEAT_2; pfam13646 643562005931 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 643562005932 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 643562005933 active site 643562005934 phosphorylation site [posttranslational modification] 643562005935 intermolecular recognition site; other site 643562005936 dimerization interface [polypeptide binding]; other site 643562005937 CheB methylesterase; Region: CheB_methylest; pfam01339 643562005938 Methyltransferase domain; Region: Methyltransf_26; pfam13659 643562005939 Methyltransferase domain; Region: Methyltransf_26; pfam13659 643562005940 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 643562005941 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 643562005942 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 643562005943 HTH-like domain; Region: HTH_21; pfam13276 643562005944 Integrase core domain; Region: rve; pfam00665 643562005945 Integrase core domain; Region: rve_3; pfam13683 643562005946 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 643562005947 DNA-binding interface [nucleotide binding]; DNA binding site 643562005948 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 643562005949 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 643562005950 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 643562005951 DXD motif; other site 643562005952 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 643562005953 Ferrous iron transport protein B; Region: FeoB_N; pfam02421 643562005954 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 643562005955 G1 box; other site 643562005956 GTP/Mg2+ binding site [chemical binding]; other site 643562005957 Switch I region; other site 643562005958 G2 box; other site 643562005959 G3 box; other site 643562005960 Switch II region; other site 643562005961 G4 box; other site 643562005962 G5 box; other site 643562005963 Nucleoside recognition; Region: Gate; pfam07670 643562005964 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 643562005965 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 643562005966 FeoA domain; Region: FeoA; pfam04023 643562005967 ferric uptake regulator; Provisional; Region: fur; PRK09462 643562005968 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 643562005969 metal binding site 2 [ion binding]; metal-binding site 643562005970 putative DNA binding helix; other site 643562005971 metal binding site 1 [ion binding]; metal-binding site 643562005972 dimer interface [polypeptide binding]; other site 643562005973 structural Zn2+ binding site [ion binding]; other site 643562005974 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 643562005975 metal binding site 2 [ion binding]; metal-binding site 643562005976 putative DNA binding helix; other site 643562005977 metal binding site 1 [ion binding]; metal-binding site 643562005978 dimer interface [polypeptide binding]; other site 643562005979 structural Zn2+ binding site [ion binding]; other site 643562005980 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 643562005981 VWA-like domain (DUF2201); Region: DUF2201; pfam09967 643562005982 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 643562005983 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 643562005984 Walker A motif; other site 643562005985 ATP binding site [chemical binding]; other site 643562005986 Walker B motif; other site 643562005987 arginine finger; other site 643562005988 Domain of unknown function (DUF1987); Region: DUF1987; pfam09345 643562005989 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 643562005990 PAS domain S-box; Region: sensory_box; TIGR00229 643562005991 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 643562005992 putative active site [active] 643562005993 heme pocket [chemical binding]; other site 643562005994 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643562005995 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643562005996 metal binding site [ion binding]; metal-binding site 643562005997 active site 643562005998 I-site; other site 643562005999 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 643562006000 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; cl17432 643562006001 membrane-bound complex binding site; other site 643562006002 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 643562006003 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 643562006004 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 643562006005 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 643562006006 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 643562006007 Walker A/P-loop; other site 643562006008 ATP binding site [chemical binding]; other site 643562006009 Q-loop/lid; other site 643562006010 ABC transporter signature motif; other site 643562006011 Walker B; other site 643562006012 D-loop; other site 643562006013 H-loop/switch region; other site 643562006014 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 643562006015 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 643562006016 substrate binding pocket [chemical binding]; other site 643562006017 membrane-bound complex binding site; other site 643562006018 hinge residues; other site 643562006019 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 643562006020 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643562006021 dimer interface [polypeptide binding]; other site 643562006022 conserved gate region; other site 643562006023 putative PBP binding loops; other site 643562006024 ABC-ATPase subunit interface; other site 643562006025 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 643562006026 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643562006027 dimer interface [polypeptide binding]; other site 643562006028 conserved gate region; other site 643562006029 putative PBP binding loops; other site 643562006030 ABC-ATPase subunit interface; other site 643562006031 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 643562006032 trimer interface [polypeptide binding]; other site 643562006033 putative Zn binding site [ion binding]; other site 643562006034 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 643562006035 heme-binding residues [chemical binding]; other site 643562006036 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 643562006037 tartrate dehydrogenase; Region: TTC; TIGR02089 643562006038 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 643562006039 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 643562006040 substrate binding site [chemical binding]; other site 643562006041 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 643562006042 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 643562006043 substrate binding site [chemical binding]; other site 643562006044 ligand binding site [chemical binding]; other site 643562006045 2-isopropylmalate synthase; Validated; Region: PRK00915 643562006046 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 643562006047 active site 643562006048 catalytic residues [active] 643562006049 metal binding site [ion binding]; metal-binding site 643562006050 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 643562006051 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 643562006052 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 643562006053 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 643562006054 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 643562006055 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 643562006056 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 643562006057 Domain of unknown function (DUF814); Region: DUF814; pfam05670 643562006058 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 643562006059 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 643562006060 minor groove reading motif; other site 643562006061 helix-hairpin-helix signature motif; other site 643562006062 substrate binding pocket [chemical binding]; other site 643562006063 active site 643562006064 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 643562006065 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 643562006066 active site 643562006067 8-oxo-dGMP binding site [chemical binding]; other site 643562006068 nudix motif; other site 643562006069 metal binding site [ion binding]; metal-binding site 643562006070 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 643562006071 catalytic core [active] 643562006072 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 643562006073 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 643562006074 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 643562006075 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 643562006076 active site 643562006077 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 643562006078 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 643562006079 murein hydrolase B; Provisional; Region: PRK10760; cl17906 643562006080 Transglycosylase SLT domain; Region: SLT_2; pfam13406 643562006081 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...; Region: LT_GEWL; cd00254 643562006082 N-acetyl-D-glucosamine binding site [chemical binding]; other site 643562006083 Uncharacterized archaeal Zn-finger protein [General function prediction only]; Region: COG1326 643562006084 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 643562006085 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 643562006086 MPT binding site; other site 643562006087 trimer interface [polypeptide binding]; other site 643562006088 Protein of unknown function (DUF1614); Region: DUF1614; pfam07758 643562006089 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 643562006090 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 643562006091 substrate binding site; other site 643562006092 tetramer interface; other site 643562006093 PilZ domain; Region: PilZ; pfam07238 643562006094 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 643562006095 active site 643562006096 catalytic triad [active] 643562006097 oxyanion hole [active] 643562006098 switch loop; other site 643562006099 Uncharacterized conserved protein [Function unknown]; Region: COG0398 643562006100 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 643562006101 YcaO-like family; Region: YcaO; pfam02624 643562006102 thiazole/oxazole-forming peptide maturase, SagD family component; Region: TOMM_cyclo_SagD; TIGR03604 643562006103 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 643562006104 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 643562006105 HTH-like domain; Region: HTH_21; pfam13276 643562006106 Integrase core domain; Region: rve; pfam00665 643562006107 Integrase core domain; Region: rve_3; pfam13683 643562006108 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 643562006109 DNA-binding interface [nucleotide binding]; DNA binding site 643562006110 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; cl17257 643562006111 Dinitrogenase iron-molybdenum cofactor; Region: Nitro_FeMo-Co; pfam02579 643562006112 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 643562006113 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 643562006114 P loop nucleotide binding; other site 643562006115 switch II; other site 643562006116 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 643562006117 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 643562006118 P loop nucleotide binding; other site 643562006119 switch II; other site 643562006120 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 643562006121 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; pfam09723 643562006122 CGGC domain; Region: CGGC; pfam08821 643562006123 Bacterial protein of unknown function (DUF922); Region: DUF922; cl02415 643562006124 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cl00239 643562006125 domain_subunit interface; other site 643562006126 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 643562006127 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 643562006128 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 643562006129 4Fe-4S binding domain; Region: Fer4_6; pfam12837 643562006130 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 643562006131 4Fe-4S binding domain; Region: Fer4; pfam00037 643562006132 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 643562006133 active site 643562006134 FMN binding site [chemical binding]; other site 643562006135 substrate binding site [chemical binding]; other site 643562006136 3Fe-4S cluster binding site [ion binding]; other site 643562006137 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 643562006138 active site 643562006139 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 643562006140 Transcriptional regulator; Region: Rrf2; cl17282 643562006141 Predicted transcriptional regulator [Transcription]; Region: COG1959 643562006142 MltA specific insert domain; Region: MltA; smart00925 643562006143 3D domain; Region: 3D; pfam06725 643562006144 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 643562006145 Domain of unknown function DUF20; Region: UPF0118; pfam01594 643562006146 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 643562006147 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 643562006148 substrate binding pocket [chemical binding]; other site 643562006149 membrane-bound complex binding site; other site 643562006150 hinge residues; other site 643562006151 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643562006152 dimer interface [polypeptide binding]; other site 643562006153 conserved gate region; other site 643562006154 putative PBP binding loops; other site 643562006155 ABC-ATPase subunit interface; other site 643562006156 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 643562006157 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 643562006158 Walker A/P-loop; other site 643562006159 ATP binding site [chemical binding]; other site 643562006160 Q-loop/lid; other site 643562006161 ABC transporter signature motif; other site 643562006162 Walker B; other site 643562006163 D-loop; other site 643562006164 H-loop/switch region; other site 643562006165 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 643562006166 Methyltransferase domain; Region: Methyltransf_31; pfam13847 643562006167 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 643562006168 S-adenosylmethionine binding site [chemical binding]; other site 643562006169 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 643562006170 Methyltransferase domain; Region: Methyltransf_23; pfam13489 643562006171 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; cl17173 643562006172 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 643562006173 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 643562006174 Methyltransferase domain; Region: Methyltransf_23; pfam13489 643562006175 Methyltransferase domain; Region: Methyltransf_12; pfam08242 643562006176 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 643562006177 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 643562006178 classical (c) SDRs; Region: SDR_c; cd05233 643562006179 NAD(P) binding site [chemical binding]; other site 643562006180 active site 643562006181 cupin fold metalloprotein, WbuC family; Region: cupin_WbuC; TIGR04366 643562006182 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 643562006183 Radical SAM superfamily; Region: Radical_SAM; pfam04055 643562006184 FeS/SAM binding site; other site 643562006185 Methyltransferase domain; Region: Methyltransf_31; pfam13847 643562006186 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 643562006187 S-adenosylmethionine binding site [chemical binding]; other site 643562006188 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 643562006189 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 643562006190 PYR/PP interface [polypeptide binding]; other site 643562006191 dimer interface [polypeptide binding]; other site 643562006192 TPP binding site [chemical binding]; other site 643562006193 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 643562006194 transketolase; Reviewed; Region: PRK05899 643562006195 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 643562006196 TPP-binding site [chemical binding]; other site 643562006197 dimer interface [polypeptide binding]; other site 643562006198 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 643562006199 extended (e) SDRs; Region: SDR_e; cd08946 643562006200 NAD(P) binding site [chemical binding]; other site 643562006201 active site 643562006202 substrate binding site [chemical binding]; other site 643562006203 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 643562006204 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 643562006205 active site 643562006206 dimer interface [polypeptide binding]; other site 643562006207 Uncharacterized conserved protein [Function unknown]; Region: COG1915 643562006208 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 643562006209 active site 643562006210 nucleotide binding site [chemical binding]; other site 643562006211 HIGH motif; other site 643562006212 KMSKS motif; other site 643562006213 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 643562006214 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 643562006215 substrate binding site [chemical binding]; other site 643562006216 ATP binding site [chemical binding]; other site 643562006217 Phosphotransferase enzyme family; Region: APH; pfam01636 643562006218 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; cl17270 643562006219 active site 643562006220 ATP binding site [chemical binding]; other site 643562006221 haloacid dehalogenase superfamily, subfamily IA, variant 1 with third motif having Dx(3-4)D or Dx(3-4)E; Region: HAD-SF-IA-v1; TIGR01549 643562006222 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 643562006223 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 643562006224 Ligand binding site; other site 643562006225 Putative Catalytic site; other site 643562006226 DXD motif; other site 643562006227 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 643562006228 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 643562006229 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 643562006230 putative active site [active] 643562006231 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 643562006232 NAD dependent epimerase/dehydratase, LLPSF_EDH_00030 family; Region: EDH_00030; TIGR04180 643562006233 NAD binding site [chemical binding]; other site 643562006234 substrate binding site [chemical binding]; other site 643562006235 active site 643562006236 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 643562006237 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 643562006238 inhibitor-cofactor binding pocket; inhibition site 643562006239 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643562006240 catalytic residue [active] 643562006241 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 643562006242 NeuB family; Region: NeuB; pfam03102 643562006243 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 643562006244 NeuB binding interface [polypeptide binding]; other site 643562006245 putative substrate binding site [chemical binding]; other site 643562006246 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 643562006247 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 643562006248 active site 643562006249 homodimer interface [polypeptide binding]; other site 643562006250 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain associated with the NTP (Nucleotidyl transferase) domain downstream. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently...; Region: CBS_pair_NTP_transferase_assoc; cd04607 643562006251 FOG: CBS domain [General function prediction only]; Region: COG0517 643562006252 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 643562006253 NTP_trnasferase_like_2 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_2; cd06426 643562006254 Substrate binding site; other site 643562006255 metal-binding site 643562006256 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 643562006257 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 643562006258 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 643562006259 ligand binding site; other site 643562006260 tetramer interface; other site 643562006261 flagellin modification protein A; Provisional; Region: PRK09186 643562006262 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 643562006263 NAD(P) binding site [chemical binding]; other site 643562006264 active site 643562006265 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 643562006266 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 643562006267 substrate binding site [chemical binding]; other site 643562006268 glutamase interaction surface [polypeptide binding]; other site 643562006269 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 643562006270 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 643562006271 putative active site [active] 643562006272 oxyanion strand; other site 643562006273 catalytic triad [active] 643562006274 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 643562006275 Ligand Binding Site [chemical binding]; other site 643562006276 putative transferase, LIC12162 family; Region: o_ant_LIC12162; TIGR04331 643562006277 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 643562006278 Na binding site [ion binding]; other site 643562006279 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 643562006280 dimer interface [polypeptide binding]; other site 643562006281 phosphorylation site [posttranslational modification] 643562006282 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 643562006283 ATP binding site [chemical binding]; other site 643562006284 Mg2+ binding site [ion binding]; other site 643562006285 G-X-G motif; other site 643562006286 Response regulator receiver domain; Region: Response_reg; pfam00072 643562006287 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 643562006288 active site 643562006289 phosphorylation site [posttranslational modification] 643562006290 intermolecular recognition site; other site 643562006291 dimerization interface [polypeptide binding]; other site 643562006292 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 643562006293 dimer interface [polypeptide binding]; other site 643562006294 phosphorylation site [posttranslational modification] 643562006295 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 643562006296 ATP binding site [chemical binding]; other site 643562006297 Mg2+ binding site [ion binding]; other site 643562006298 G-X-G motif; other site 643562006299 PilZ domain; Region: PilZ; pfam07238 643562006300 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 643562006301 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 643562006302 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 643562006303 G1 box; other site 643562006304 GTP/Mg2+ binding site [chemical binding]; other site 643562006305 Switch I region; other site 643562006306 G2 box; other site 643562006307 G3 box; other site 643562006308 Switch II region; other site 643562006309 G4 box; other site 643562006310 G5 box; other site 643562006311 Nucleoside recognition; Region: Gate; pfam07670 643562006312 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 643562006313 Nucleoside recognition; Region: Gate; pfam07670 643562006314 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 643562006315 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 643562006316 HflX GTPase family; Region: HflX; cd01878 643562006317 G1 box; other site 643562006318 GTP/Mg2+ binding site [chemical binding]; other site 643562006319 Switch I region; other site 643562006320 G2 box; other site 643562006321 G3 box; other site 643562006322 Switch II region; other site 643562006323 G4 box; other site 643562006324 G5 box; other site 643562006325 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 643562006326 purine monophosphate binding site [chemical binding]; other site 643562006327 dimer interface [polypeptide binding]; other site 643562006328 putative catalytic residues [active] 643562006329 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 643562006330 binding surface 643562006331 TPR repeat; Region: TPR_11; pfam13414 643562006332 TPR motif; other site 643562006333 TPR repeat; Region: TPR_11; pfam13414 643562006334 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 643562006335 binding surface 643562006336 TPR motif; other site 643562006337 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12621 643562006338 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 643562006339 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 643562006340 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 643562006341 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 643562006342 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 643562006343 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 643562006344 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 643562006345 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 643562006346 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 643562006347 MgtE intracellular N domain; Region: MgtE_N; pfam03448 643562006348 FliG C-terminal domain; Region: FliG_C; pfam01706 643562006349 ATP synthase (E/31 kDa) subunit; Region: vATP-synt_E; pfam01991 643562006350 Flagellar assembly protein FliH; Region: FliH; pfam02108 643562006351 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 643562006352 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 643562006353 Walker A motif/ATP binding site; other site 643562006354 Walker B motif; other site 643562006355 Low molecular weight phosphatase family; Region: LMWPc; cd00115 643562006356 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 643562006357 active site 643562006358 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 643562006359 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 643562006360 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 643562006361 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 643562006362 DNA binding residues [nucleotide binding] 643562006363 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 643562006364 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 643562006365 putative tRNA-binding site [nucleotide binding]; other site 643562006366 B3/4 domain; Region: B3_4; pfam03483 643562006367 tRNA synthetase B5 domain; Region: B5; pfam03484 643562006368 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 643562006369 dimer interface [polypeptide binding]; other site 643562006370 motif 1; other site 643562006371 motif 3; other site 643562006372 motif 2; other site 643562006373 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 643562006374 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 643562006375 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 643562006376 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 643562006377 dimer interface [polypeptide binding]; other site 643562006378 motif 1; other site 643562006379 active site 643562006380 motif 2; other site 643562006381 motif 3; other site 643562006382 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 643562006383 23S rRNA binding site [nucleotide binding]; other site 643562006384 L21 binding site [polypeptide binding]; other site 643562006385 L13 binding site [polypeptide binding]; other site 643562006386 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 643562006387 translation initiation factor IF-3; Region: infC; TIGR00168 643562006388 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 643562006389 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 643562006390 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 643562006391 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 643562006392 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 643562006393 active site 643562006394 dimer interface [polypeptide binding]; other site 643562006395 motif 1; other site 643562006396 motif 2; other site 643562006397 motif 3; other site 643562006398 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 643562006399 anticodon binding site; other site 643562006400 DsrE/DsrF-like family; Region: DrsE; pfam02635 643562006401 HEAT-like repeat; Region: HEAT_EZ; pfam13513 643562006402 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 643562006403 TPR motif; other site 643562006404 Tetratricopeptide repeat; Region: TPR_16; pfam13432 643562006405 binding surface 643562006406 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 643562006407 binding surface 643562006408 TPR motif; other site 643562006409 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 643562006410 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 643562006411 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 643562006412 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 643562006413 putative molybdopterin biosynthesis protein MoeA/LysR substrate binding-domain-containing protein; Provisional; Region: PRK14498 643562006414 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 643562006415 dimer interface [polypeptide binding]; other site 643562006416 putative functional site; other site 643562006417 putative MPT binding site; other site 643562006418 PBP superfamily domain; Region: PBP_like; pfam12727 643562006419 Isochorismatase family; Region: Isochorismatase; pfam00857 643562006420 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 643562006421 catalytic triad [active] 643562006422 conserved cis-peptide bond; other site 643562006423 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 643562006424 B12 binding site [chemical binding]; other site 643562006425 Radical SAM superfamily; Region: Radical_SAM; pfam04055 643562006426 Domain of unknown function (DUF4070); Region: DUF4070; pfam13282 643562006427 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 643562006428 dimer interface [polypeptide binding]; other site 643562006429 putative tRNA-binding site [nucleotide binding]; other site 643562006430 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG3366 643562006431 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 643562006432 homotrimer interaction site [polypeptide binding]; other site 643562006433 putative active site [active] 643562006434 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 643562006435 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 643562006436 putative active site; other site 643562006437 catalytic residue [active] 643562006438 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 643562006439 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...; Region: LT_GEWL; cd00254 643562006440 N-acetyl-D-glucosamine binding site [chemical binding]; other site 643562006441 catalytic residue [active] 643562006442 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 643562006443 putative active site [active] 643562006444 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 643562006445 metal binding triad; other site 643562006446 Putative nucleotidyltransferase substrate binding domain; Region: DUF294_C; pfam10335 643562006447 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 643562006448 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 643562006449 Na binding site [ion binding]; other site 643562006450 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 643562006451 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 643562006452 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 643562006453 FeS/SAM binding site; other site 643562006454 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 643562006455 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; pfam10105 643562006456 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 643562006457 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 643562006458 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 643562006459 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643562006460 dimer interface [polypeptide binding]; other site 643562006461 conserved gate region; other site 643562006462 putative PBP binding loops; other site 643562006463 ABC-ATPase subunit interface; other site 643562006464 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 643562006465 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 643562006466 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643562006467 dimer interface [polypeptide binding]; other site 643562006468 conserved gate region; other site 643562006469 putative PBP binding loops; other site 643562006470 ABC-ATPase subunit interface; other site 643562006471 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 643562006472 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 643562006473 Walker A/P-loop; other site 643562006474 ATP binding site [chemical binding]; other site 643562006475 Q-loop/lid; other site 643562006476 ABC transporter signature motif; other site 643562006477 Walker B; other site 643562006478 D-loop; other site 643562006479 H-loop/switch region; other site 643562006480 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 643562006481 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 643562006482 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 643562006483 Walker A/P-loop; other site 643562006484 ATP binding site [chemical binding]; other site 643562006485 Q-loop/lid; other site 643562006486 ABC transporter signature motif; other site 643562006487 Walker B; other site 643562006488 D-loop; other site 643562006489 H-loop/switch region; other site 643562006490 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 643562006491 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 643562006492 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 643562006493 DNA-binding interface [nucleotide binding]; DNA binding site 643562006494 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 643562006495 HTH-like domain; Region: HTH_21; pfam13276 643562006496 Integrase core domain; Region: rve; pfam00665 643562006497 Integrase core domain; Region: rve_3; pfam13683 643562006498 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 643562006499 Response regulator receiver domain; Region: Response_reg; pfam00072 643562006500 active site 643562006501 phosphorylation site [posttranslational modification] 643562006502 intermolecular recognition site; other site 643562006503 dimerization interface [polypeptide binding]; other site 643562006504 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 643562006505 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 643562006506 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 643562006507 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 643562006508 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 643562006509 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 643562006510 active site residue [active] 643562006511 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 643562006512 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 643562006513 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643562006514 homodimer interface [polypeptide binding]; other site 643562006515 catalytic residue [active] 643562006516 Fumarase C-terminus; Region: Fumerase_C; cl00795 643562006517 fumarate hydratase; Provisional; Region: PRK06246 643562006518 fumarate reductase iron-sulfur subunit; Provisional; Region: frdB; PRK13552 643562006519 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 643562006520 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 643562006521 fumarate reductase flavoprotein subunit; Provisional; Region: PRK08626 643562006522 L-aspartate oxidase; Provisional; Region: PRK06175 643562006523 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 643562006524 Quinol:fumarate reductase (QFR) Type B subfamily, transmembrane subunit; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinone...; Region: QFR_TypeB_TM; cd00581 643562006525 Iron-sulfur protein interface; other site 643562006526 proximal heme binding site [chemical binding]; other site 643562006527 distal heme binding site [chemical binding]; other site 643562006528 dimer interface [polypeptide binding]; other site 643562006529 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 643562006530 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 643562006531 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 643562006532 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 643562006533 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 643562006534 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 643562006535 Putative heavy-metal-binding; Region: YbjQ_1; pfam01906 643562006536 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 643562006537 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 643562006538 Tetramer interface [polypeptide binding]; other site 643562006539 active site 643562006540 FMN-binding site [chemical binding]; other site 643562006541 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 643562006542 TrkA-N domain; Region: TrkA_N; pfam02254 643562006543 TrkA-C domain; Region: TrkA_C; pfam02080 643562006544 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 643562006545 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 643562006546 Zn2+ binding site [ion binding]; other site 643562006547 Mg2+ binding site [ion binding]; other site 643562006548 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 643562006549 synthetase active site [active] 643562006550 NTP binding site [chemical binding]; other site 643562006551 metal binding site [ion binding]; metal-binding site 643562006552 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 643562006553 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 643562006554 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 643562006555 The substrate-binding component of the oligopeptide-binding protein, AppA, from Bacillus subtilis contains the type 2 periplasmic-binding fold; Region: PBP2_AppA_like; cd08514 643562006556 peptide binding site [polypeptide binding]; other site 643562006557 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 643562006558 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 643562006559 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 643562006560 ATP binding site [chemical binding]; other site 643562006561 putative Mg++ binding site [ion binding]; other site 643562006562 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 643562006563 nucleotide binding region [chemical binding]; other site 643562006564 ATP-binding site [chemical binding]; other site 643562006565 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 643562006566 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 643562006567 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 643562006568 dimer interface [polypeptide binding]; other site 643562006569 ssDNA binding site [nucleotide binding]; other site 643562006570 tetramer (dimer of dimers) interface [polypeptide binding]; other site 643562006571 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 643562006572 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 643562006573 lipoyl-biotinyl attachment site [posttranslational modification]; other site 643562006574 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 643562006575 Acetyl-CoA carboxylase beta subunit [Lipid metabolism]; Region: AccD; COG0777 643562006576 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 643562006577 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 643562006578 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 643562006579 ATP-grasp domain; Region: ATP-grasp_4; cl17255 643562006580 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 643562006581 PilZ domain; Region: PilZ; pfam07238 643562006582 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 643562006583 ligand binding site [chemical binding]; other site 643562006584 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 643562006585 purine nucleoside phosphorylase; Provisional; Region: PRK08202 643562006586 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 643562006587 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 643562006588 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 643562006589 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 643562006590 TPP-binding site [chemical binding]; other site 643562006591 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated; Region: PRK08659 643562006592 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 643562006593 dimer interface [polypeptide binding]; other site 643562006594 PYR/PP interface [polypeptide binding]; other site 643562006595 TPP binding site [chemical binding]; other site 643562006596 substrate binding site [chemical binding]; other site 643562006597 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 643562006598 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 643562006599 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 643562006600 Precorrin-8X methylmutase; Region: CbiC; pfam02570 643562006601 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 643562006602 intersubunit interface [polypeptide binding]; other site 643562006603 active site 643562006604 catalytic residue [active] 643562006605 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643562006606 dimer interface [polypeptide binding]; other site 643562006607 conserved gate region; other site 643562006608 putative PBP binding loops; other site 643562006609 ABC-ATPase subunit interface; other site 643562006610 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 643562006611 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643562006612 dimer interface [polypeptide binding]; other site 643562006613 conserved gate region; other site 643562006614 putative PBP binding loops; other site 643562006615 ABC-ATPase subunit interface; other site 643562006616 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 643562006617 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 643562006618 substrate binding pocket [chemical binding]; other site 643562006619 membrane-bound complex binding site; other site 643562006620 hinge residues; other site 643562006621 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 643562006622 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 643562006623 Walker A/P-loop; other site 643562006624 ATP binding site [chemical binding]; other site 643562006625 Q-loop/lid; other site 643562006626 ABC transporter signature motif; other site 643562006627 Walker B; other site 643562006628 D-loop; other site 643562006629 H-loop/switch region; other site 643562006630 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 643562006631 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 643562006632 HlyD family secretion protein; Region: HlyD_3; pfam13437 643562006633 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 643562006634 Protein export membrane protein; Region: SecD_SecF; cl14618 643562006635 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 643562006636 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 643562006637 putative active site [active] 643562006638 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 643562006639 ZIP Zinc transporter; Region: Zip; pfam02535 643562006640 cytosine deaminase; Validated; Region: PRK07572 643562006641 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 643562006642 active site 643562006643 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 643562006644 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 643562006645 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 643562006646 4Fe-4S binding domain; Region: Fer4; cl02805 643562006647 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 643562006648 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 643562006649 molybdopterin cofactor binding site; other site 643562006650 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 643562006651 heme-binding residues [chemical binding]; other site 643562006652 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 643562006653 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 643562006654 Substrate binding site; other site 643562006655 Cupin domain; Region: Cupin_2; cl17218 643562006656 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 643562006657 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 643562006658 Colicin V production protein; Region: Colicin_V; pfam02674 643562006659 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 643562006660 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 643562006661 homodimer interface [polypeptide binding]; other site 643562006662 metal binding site [ion binding]; metal-binding site 643562006663 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 643562006664 homodimer interface [polypeptide binding]; other site 643562006665 active site 643562006666 putative chemical substrate binding site [chemical binding]; other site 643562006667 metal binding site [ion binding]; metal-binding site 643562006668 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 643562006669 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 643562006670 XdhC Rossmann domain; Region: XdhC_C; pfam13478 643562006671 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 643562006672 Ligand binding site; other site 643562006673 metal-binding site 643562006674 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 643562006675 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 643562006676 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 643562006677 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 643562006678 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 643562006679 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 643562006680 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 643562006681 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 643562006682 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 643562006683 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 643562006684 metal binding site 2 [ion binding]; metal-binding site 643562006685 putative DNA binding helix; other site 643562006686 metal binding site 1 [ion binding]; metal-binding site 643562006687 dimer interface [polypeptide binding]; other site 643562006688 structural Zn2+ binding site [ion binding]; other site 643562006689 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 643562006690 substrate binding site [chemical binding]; other site 643562006691 multimerization interface [polypeptide binding]; other site 643562006692 ATP binding site [chemical binding]; other site 643562006693 helicase 45; Provisional; Region: PTZ00424 643562006694 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 643562006695 ATP binding site [chemical binding]; other site 643562006696 Mg++ binding site [ion binding]; other site 643562006697 motif III; other site 643562006698 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 643562006699 nucleotide binding region [chemical binding]; other site 643562006700 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 643562006701 active site 643562006702 catalytic residues [active] 643562006703 DNA binding site [nucleotide binding] 643562006704 Int/Topo IB signature motif; other site 643562006705 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 643562006706 TOBE domain; Region: TOBE; cl01440 643562006707 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 643562006708 GTP-binding protein Der; Reviewed; Region: PRK00093 643562006709 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 643562006710 G1 box; other site 643562006711 GTP/Mg2+ binding site [chemical binding]; other site 643562006712 Switch I region; other site 643562006713 G2 box; other site 643562006714 Switch II region; other site 643562006715 G3 box; other site 643562006716 G4 box; other site 643562006717 G5 box; other site 643562006718 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 643562006719 G1 box; other site 643562006720 GTP/Mg2+ binding site [chemical binding]; other site 643562006721 Switch I region; other site 643562006722 G2 box; other site 643562006723 G3 box; other site 643562006724 Switch II region; other site 643562006725 G4 box; other site 643562006726 G5 box; other site 643562006727 Cache domain; Region: Cache_1; pfam02743 643562006728 PAS domain; Region: PAS_9; pfam13426 643562006729 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 643562006730 putative active site [active] 643562006731 heme pocket [chemical binding]; other site 643562006732 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 643562006733 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643562006734 dimer interface [polypeptide binding]; other site 643562006735 putative CheW interface [polypeptide binding]; other site 643562006736 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182 643562006737 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 643562006738 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 643562006739 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 643562006740 GatB domain; Region: GatB_Yqey; smart00845 643562006741 Protein of unknown function (DUF4254); Region: DUF4254; pfam14063 643562006742 MltA specific insert domain; Region: MltA; smart00925 643562006743 3D domain; Region: 3D; pfam06725 643562006744 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 643562006745 ATP-NAD kinase; Region: NAD_kinase; pfam01513 643562006746 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 643562006747 flagellar assembly protein FliW; Provisional; Region: PRK13285 643562006748 Global regulator protein family; Region: CsrA; pfam02599 643562006749 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 643562006750 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK07701 643562006751 flagellar hook-associated protein FlgK; Region: flgK_ends; TIGR02492 643562006752 Flagellar hook-associated protein [Cell motility and secretion]; Region: FlgK; COG1256 643562006753 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 643562006754 FlgN protein; Region: FlgN; pfam05130 643562006755 Rod binding protein; Region: Rod-binding; cl01626 643562006756 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 643562006757 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 643562006758 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12696 643562006759 Flagellar L-ring protein; Region: FlgH; pfam02107 643562006760 SAF-like; Region: SAF_2; pfam13144 643562006761 flagella basal body P-ring formation protein FlgA; Region: flgA_cterm; TIGR03170 643562006762 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 643562006763 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 643562006764 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 643562006765 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 643562006766 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 643562006767 ribosome maturation protein RimP; Reviewed; Region: PRK00092 643562006768 hypothetical protein; Provisional; Region: PRK14641 643562006769 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 643562006770 putative oligomer interface [polypeptide binding]; other site 643562006771 putative RNA binding site [nucleotide binding]; other site 643562006772 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 643562006773 NusA N-terminal domain; Region: NusA_N; pfam08529 643562006774 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 643562006775 RNA binding site [nucleotide binding]; other site 643562006776 homodimer interface [polypeptide binding]; other site 643562006777 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 643562006778 G-X-X-G motif; other site 643562006779 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 643562006780 G-X-X-G motif; other site 643562006781 Protein of unknown function (DUF448); Region: DUF448; pfam04296 643562006782 putative RNA binding cleft [nucleotide binding]; other site 643562006783 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 643562006784 translation initiation factor IF-2; Region: IF-2; TIGR00487 643562006785 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 643562006786 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 643562006787 G1 box; other site 643562006788 putative GEF interaction site [polypeptide binding]; other site 643562006789 GTP/Mg2+ binding site [chemical binding]; other site 643562006790 Switch I region; other site 643562006791 G2 box; other site 643562006792 G3 box; other site 643562006793 Switch II region; other site 643562006794 G4 box; other site 643562006795 G5 box; other site 643562006796 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 643562006797 Translation-initiation factor 2; Region: IF-2; pfam11987 643562006798 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 643562006799 Protein of unknown function (DUF503); Region: DUF503; pfam04456 643562006800 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 643562006801 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 643562006802 DHH family; Region: DHH; pfam01368 643562006803 tRNA pseudouridine(55) synthase; Region: TruB; TIGR00431 643562006804 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 643562006805 RNA binding site [nucleotide binding]; other site 643562006806 active site 643562006807 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 643562006808 16S/18S rRNA binding site [nucleotide binding]; other site 643562006809 S13e-L30e interaction site [polypeptide binding]; other site 643562006810 25S rRNA binding site [nucleotide binding]; other site 643562006811 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 643562006812 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 643562006813 RNase E interface [polypeptide binding]; other site 643562006814 trimer interface [polypeptide binding]; other site 643562006815 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 643562006816 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 643562006817 RNase E interface [polypeptide binding]; other site 643562006818 trimer interface [polypeptide binding]; other site 643562006819 active site 643562006820 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 643562006821 putative nucleic acid binding region [nucleotide binding]; other site 643562006822 G-X-X-G motif; other site 643562006823 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 643562006824 RNA binding site [nucleotide binding]; other site 643562006825 domain interface; other site 643562006826 Memo (mediator of ErbB2-driven cell motility) is co-precipitated with the C terminus of ErbB2, a protein involved in cell motility; Region: MEMO_like; cd07361 643562006827 putative ligand binding pocket/active site [active] 643562006828 putative metal binding site [ion binding]; other site 643562006829 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 643562006830 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 643562006831 TPR motif; other site 643562006832 binding surface 643562006833 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 643562006834 Tetratricopeptide repeat; Region: TPR_6; pfam13174 643562006835 Nucleoside diphosphate kinases (NDP kinases, NDPks): NDP kinases, responsible for the synthesis of nucleoside triphosphates (NTPs), are involved in numerous regulatory processes associated with proliferation, development, and differentiation. They are...; Region: NDPk; cl00335 643562006836 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 643562006837 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 643562006838 Walker A motif; other site 643562006839 ATP binding site [chemical binding]; other site 643562006840 Walker B motif; other site 643562006841 arginine finger; other site 643562006842 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 643562006843 conserved hypothetical protein; Region: TIGR02285 643562006844 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 643562006845 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 643562006846 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 643562006847 flagellar basal-body rod protein FlgC; Region: FlgC; TIGR01395 643562006848 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 643562006849 putative GTP cyclohydrolase; Provisional; Region: PRK13674 643562006850 nickel responsive regulator; Provisional; Region: PRK04460 643562006851 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 643562006852 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 643562006853 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 643562006854 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 643562006855 lipoyl attachment site [posttranslational modification]; other site 643562006856 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 643562006857 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 643562006858 tetramer interface [polypeptide binding]; other site 643562006859 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643562006860 catalytic residue [active] 643562006861 glycine dehydrogenase subunit 2; Validated; Region: PRK04366 643562006862 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 643562006863 catalytic residue [active] 643562006864 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 643562006865 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 643562006866 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 643562006867 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 643562006868 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 643562006869 classical (c) SDRs; Region: SDR_c; cd05233 643562006870 NAD(P) binding site [chemical binding]; other site 643562006871 active site 643562006872 Domain of unknown function (DUF386); Region: DUF386; cl01047 643562006873 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 643562006874 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 643562006875 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 643562006876 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 643562006877 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 643562006878 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 643562006879 putative acyl-acceptor binding pocket; other site 643562006880 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 643562006881 elongation factor G; Reviewed; Region: PRK12740 643562006882 G1 box; other site 643562006883 putative GEF interaction site [polypeptide binding]; other site 643562006884 GTP/Mg2+ binding site [chemical binding]; other site 643562006885 Switch I region; other site 643562006886 G2 box; other site 643562006887 G3 box; other site 643562006888 Switch II region; other site 643562006889 G4 box; other site 643562006890 G5 box; other site 643562006891 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 643562006892 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 643562006893 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 643562006894 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 643562006895 ParB-like nuclease domain; Region: ParB; smart00470 643562006896 Radical SAM superfamily; Region: Radical_SAM; pfam04055 643562006897 spore photoproduct lyase; Region: photo_TT_lyase; cl15393 643562006898 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 643562006899 Transposase; Region: DEDD_Tnp_IS110; pfam01548 643562006900 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 643562006901 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 643562006902 active site 643562006903 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 643562006904 rRNA interaction site [nucleotide binding]; other site 643562006905 S8 interaction site; other site 643562006906 putative laminin-1 binding site; other site 643562006907 elongation factor Ts; Provisional; Region: tsf; PRK09377 643562006908 UBA/TS-N domain; Region: UBA; pfam00627 643562006909 Elongation factor TS; Region: EF_TS; pfam00889 643562006910 Elongation factor TS; Region: EF_TS; pfam00889 643562006911 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 643562006912 putative nucleotide binding site [chemical binding]; other site 643562006913 uridine monophosphate binding site [chemical binding]; other site 643562006914 homohexameric interface [polypeptide binding]; other site 643562006915 ribosome recycling factor; Reviewed; Region: frr; PRK00083 643562006916 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...; Region: RRF; cd00520 643562006917 hinge region; other site 643562006918 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 643562006919 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 643562006920 catalytic residue [active] 643562006921 putative FPP diphosphate binding site; other site 643562006922 putative FPP binding hydrophobic cleft; other site 643562006923 dimer interface [polypeptide binding]; other site 643562006924 putative IPP diphosphate binding site; other site 643562006925 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 643562006926 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 643562006927 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 643562006928 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 643562006929 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 643562006930 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 643562006931 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 643562006932 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 643562006933 active site 643562006934 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 643562006935 protein binding site [polypeptide binding]; other site 643562006936 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 643562006937 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 643562006938 Glycoprotease family; Region: Peptidase_M22; pfam00814 643562006939 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 643562006940 DnaA N-terminal domain; Region: DnaA_N; pfam11638 643562006941 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 643562006942 Walker A motif; other site 643562006943 ATP binding site [chemical binding]; other site 643562006944 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; cl17189 643562006945 Walker B motif; other site 643562006946 arginine finger; other site 643562006947 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 643562006948 DnaA box-binding interface [nucleotide binding]; other site 643562006949 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 643562006950 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 643562006951 Zinc dependent phospholipase C; Region: Zn_dep_PLPC; pfam00882 643562006952 DUF based on E. rectale Gene description (DUF3880); Region: DUF3880; pfam12996 643562006953 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 643562006954 flagellin; Provisional; Region: PRK12804 643562006955 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 643562006956 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 643562006957 flagellar capping protein; Provisional; Region: PRK12765 643562006958 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 643562006959 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 643562006960 Flagellin-specific chaperone FliS [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliS; COG1516 643562006961 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 643562006962 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 643562006963 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 643562006964 active site 643562006965 zinc-ribbon domain; Region: zinc_ribbon_5; pfam13719 643562006966 Yip1 domain; Region: Yip1; pfam04893 643562006967 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 643562006968 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 643562006969 ligand binding site [chemical binding]; other site 643562006970 putative heme d1 biosynthesis radical SAM protein NirJ1; Region: rSAM_NirJ1; TIGR04054 643562006971 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 643562006972 FeS/SAM binding site; other site 643562006973 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 643562006974 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; cd00384 643562006975 dimer interface [polypeptide binding]; other site 643562006976 active site 643562006977 Schiff base residues; other site 643562006978 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 643562006979 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 643562006980 FeS/SAM binding site; other site 643562006981 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 643562006982 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 643562006983 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 643562006984 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 643562006985 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 643562006986 substrate binding site [chemical binding]; other site 643562006987 hexamer interface [polypeptide binding]; other site 643562006988 metal binding site [ion binding]; metal-binding site 643562006989 ABC transporter ATPase component; Reviewed; Region: PRK11147 643562006990 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 643562006991 Walker A/P-loop; other site 643562006992 ATP binding site [chemical binding]; other site 643562006993 Q-loop/lid; other site 643562006994 ABC transporter signature motif; other site 643562006995 Walker B; other site 643562006996 D-loop; other site 643562006997 H-loop/switch region; other site 643562006998 ABC transporter; Region: ABC_tran_2; pfam12848 643562006999 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 643562007000 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 643562007001 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 643562007002 Coenzyme A binding pocket [chemical binding]; other site 643562007003 Proline dehydrogenase; Region: Pro_dh; cl03282 643562007004 Delta(1)-pyrroline-5-carboxylate dehydrogenase, RocA; Region: ALDH_PutA-P5CDH-RocA; cd07124 643562007005 1-pyrroline-5-carboxylate dehydrogenase; Provisional; Region: PRK03137 643562007006 Glutamate binding site [chemical binding]; other site 643562007007 homodimer interface [polypeptide binding]; other site 643562007008 NAD binding site [chemical binding]; other site 643562007009 catalytic residues [active] 643562007010 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 643562007011 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 643562007012 putative DNA binding site [nucleotide binding]; other site 643562007013 putative Zn2+ binding site [ion binding]; other site 643562007014 AsnC family; Region: AsnC_trans_reg; pfam01037 643562007015 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 643562007016 anti sigma factor interaction site; other site 643562007017 regulatory phosphorylation site [posttranslational modification]; other site 643562007018 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 643562007019 Permease; Region: Permease; pfam02405 643562007020 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 643562007021 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 643562007022 Walker A/P-loop; other site 643562007023 ATP binding site [chemical binding]; other site 643562007024 Q-loop/lid; other site 643562007025 ABC transporter signature motif; other site 643562007026 Walker B; other site 643562007027 D-loop; other site 643562007028 H-loop/switch region; other site 643562007029 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 643562007030 mce related protein; Region: MCE; pfam02470 643562007031 Protein of unknown function (DUF330); Region: DUF330; cl01135 643562007032 hypothetical protein; Provisional; Region: PRK05255 643562007033 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 643562007034 EamA-like transporter family; Region: EamA; pfam00892 643562007035 EamA-like transporter family; Region: EamA; pfam00892 643562007036 Menaquinone biosynthesis; Region: VitK2_biosynth; cl17475 643562007037 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 643562007038 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 643562007039 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 643562007040 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 643562007041 Menaquinone biosynthesis; Region: VitK2_biosynth; pfam02621 643562007042 Transcriptional regulator [Transcription]; Region: LysR; COG0583 643562007043 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643562007044 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 643562007045 putative dimerization interface [polypeptide binding]; other site 643562007046 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 643562007047 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 643562007048 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 643562007049 alphaNTD - beta interaction site [polypeptide binding]; other site 643562007050 alphaNTD homodimer interface [polypeptide binding]; other site 643562007051 alphaNTD - beta' interaction site [polypeptide binding]; other site 643562007052 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 643562007053 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 643562007054 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 643562007055 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 643562007056 RNA binding surface [nucleotide binding]; other site 643562007057 30S ribosomal protein S11; Validated; Region: PRK05309 643562007058 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 643562007059 30S ribosomal protein S13; Region: bact_S13; TIGR03631 643562007060 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 643562007061 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 643562007062 active site 643562007063 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 643562007064 SecY translocase; Region: SecY; pfam00344 643562007065 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 643562007066 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 643562007067 23S rRNA binding site [nucleotide binding]; other site 643562007068 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 643562007069 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 643562007070 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 643562007071 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 643562007072 23S rRNA interface [nucleotide binding]; other site 643562007073 L21e interface [polypeptide binding]; other site 643562007074 5S rRNA interface [nucleotide binding]; other site 643562007075 L27 interface [polypeptide binding]; other site 643562007076 L5 interface [polypeptide binding]; other site 643562007077 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 643562007078 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 643562007079 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 643562007080 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 643562007081 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 643562007082 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 643562007083 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 643562007084 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 643562007085 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 643562007086 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 643562007087 RNA binding site [nucleotide binding]; other site 643562007088 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 643562007089 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 643562007090 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 643562007091 23S rRNA interface [nucleotide binding]; other site 643562007092 putative translocon interaction site; other site 643562007093 signal recognition particle (SRP54) interaction site; other site 643562007094 L23 interface [polypeptide binding]; other site 643562007095 trigger factor interaction site; other site 643562007096 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 643562007097 23S rRNA interface [nucleotide binding]; other site 643562007098 5S rRNA interface [nucleotide binding]; other site 643562007099 putative antibiotic binding site [chemical binding]; other site 643562007100 L25 interface [polypeptide binding]; other site 643562007101 L27 interface [polypeptide binding]; other site 643562007102 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 643562007103 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 643562007104 G-X-X-G motif; other site 643562007105 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 643562007106 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 643562007107 putative translocon binding site; other site 643562007108 protein-rRNA interface [nucleotide binding]; other site 643562007109 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 643562007110 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 643562007111 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 643562007112 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 643562007113 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 643562007114 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 643562007115 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 643562007116 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 643562007117 elongation factor G; Reviewed; Region: PRK00007 643562007118 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 643562007119 G1 box; other site 643562007120 putative GEF interaction site [polypeptide binding]; other site 643562007121 GTP/Mg2+ binding site [chemical binding]; other site 643562007122 Switch I region; other site 643562007123 G2 box; other site 643562007124 G3 box; other site 643562007125 Switch II region; other site 643562007126 G4 box; other site 643562007127 G5 box; other site 643562007128 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 643562007129 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 643562007130 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 643562007131 30S ribosomal protein S7; Validated; Region: PRK05302 643562007132 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 643562007133 S17 interaction site [polypeptide binding]; other site 643562007134 S8 interaction site; other site 643562007135 16S rRNA interaction site [nucleotide binding]; other site 643562007136 streptomycin interaction site [chemical binding]; other site 643562007137 23S rRNA interaction site [nucleotide binding]; other site 643562007138 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 643562007139 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 643562007140 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 643562007141 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 643562007142 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 643562007143 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 643562007144 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 643562007145 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 643562007146 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 643562007147 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 643562007148 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 643562007149 DNA binding site [nucleotide binding] 643562007150 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 643562007151 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 643562007152 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; cl17585 643562007153 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 643562007154 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 643562007155 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 643562007156 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 643562007157 RPB3 interaction site [polypeptide binding]; other site 643562007158 RPB1 interaction site [polypeptide binding]; other site 643562007159 RPB11 interaction site [polypeptide binding]; other site 643562007160 RPB10 interaction site [polypeptide binding]; other site 643562007161 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 643562007162 core dimer interface [polypeptide binding]; other site 643562007163 peripheral dimer interface [polypeptide binding]; other site 643562007164 L10 interface [polypeptide binding]; other site 643562007165 L11 interface [polypeptide binding]; other site 643562007166 putative EF-Tu interaction site [polypeptide binding]; other site 643562007167 putative EF-G interaction site [polypeptide binding]; other site 643562007168 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 643562007169 23S rRNA interface [nucleotide binding]; other site 643562007170 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 643562007171 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 643562007172 mRNA/rRNA interface [nucleotide binding]; other site 643562007173 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 643562007174 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 643562007175 23S rRNA interface [nucleotide binding]; other site 643562007176 L7/L12 interface [polypeptide binding]; other site 643562007177 putative thiostrepton binding site; other site 643562007178 L25 interface [polypeptide binding]; other site 643562007179 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 643562007180 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 643562007181 putative homodimer interface [polypeptide binding]; other site 643562007182 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 643562007183 heterodimer interface [polypeptide binding]; other site 643562007184 homodimer interface [polypeptide binding]; other site 643562007185 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 643562007186 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 643562007187 elongation factor Tu; Reviewed; Region: PRK00049 643562007188 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 643562007189 G1 box; other site 643562007190 GEF interaction site [polypeptide binding]; other site 643562007191 GTP/Mg2+ binding site [chemical binding]; other site 643562007192 Switch I region; other site 643562007193 G2 box; other site 643562007194 G3 box; other site 643562007195 Switch II region; other site 643562007196 G4 box; other site 643562007197 G5 box; other site 643562007198 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 643562007199 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 643562007200 Antibiotic Binding Site [chemical binding]; other site 643562007201 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 643562007202 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 643562007203 FMN binding site [chemical binding]; other site 643562007204 active site 643562007205 catalytic residues [active] 643562007206 substrate binding site [chemical binding]; other site 643562007207 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 643562007208 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 643562007209 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 643562007210 active site 643562007211 phosphorylation site [posttranslational modification] 643562007212 intermolecular recognition site; other site 643562007213 dimerization interface [polypeptide binding]; other site 643562007214 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 643562007215 dimerization interface [polypeptide binding]; other site 643562007216 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 643562007217 ATP binding site [chemical binding]; other site 643562007218 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 643562007219 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 643562007220 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 643562007221 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 643562007222 Zn2+ binding site [ion binding]; other site 643562007223 Mg2+ binding site [ion binding]; other site 643562007224 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 643562007225 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 643562007226 ATP-grasp domain; Region: ATP-grasp_4; cl17255 643562007227 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 643562007228 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 643562007229 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 643562007230 Ligand binding site; other site 643562007231 oligomer interface; other site 643562007232 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 643562007233 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 643562007234 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 643562007235 catalytic site [active] 643562007236 subunit interface [polypeptide binding]; other site 643562007237 Tetratricopeptide repeat; Region: TPR_16; pfam13432 643562007238 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 643562007239 TPR motif; other site 643562007240 binding surface 643562007241 Tetratricopeptide repeat; Region: TPR_16; pfam13432 643562007242 TPR repeat; Region: TPR_11; pfam13414 643562007243 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 643562007244 binding surface 643562007245 TPR motif; other site 643562007246 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 643562007247 L-aspartate oxidase; Provisional; Region: PRK06175 643562007248 histidinol-phosphate phosphatase family domain; Region: Histidinol-ppas; TIGR01656 643562007249 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 643562007250 active site 643562007251 motif I; other site 643562007252 motif II; other site 643562007253 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 643562007254 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 643562007255 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; cd02883 643562007256 nudix motif; other site 643562007257 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 643562007258 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 643562007259 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 643562007260 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 643562007261 active site 643562007262 phosphorylation site [posttranslational modification] 643562007263 intermolecular recognition site; other site 643562007264 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 643562007265 putative binding surface; other site 643562007266 active site 643562007267 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 643562007268 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 643562007269 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 643562007270 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 643562007271 ATP binding site [chemical binding]; other site 643562007272 Mg2+ binding site [ion binding]; other site 643562007273 G-X-G motif; other site 643562007274 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 643562007275 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 643562007276 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 643562007277 active site 643562007278 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 643562007279 active site 643562007280 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 643562007281 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 643562007282 dimer interface [polypeptide binding]; other site 643562007283 ABC-ATPase subunit interface; other site 643562007284 putative PBP binding regions; other site 643562007285 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 643562007286 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 643562007287 Walker A/P-loop; other site 643562007288 ATP binding site [chemical binding]; other site 643562007289 Q-loop/lid; other site 643562007290 ABC transporter signature motif; other site 643562007291 Walker B; other site 643562007292 D-loop; other site 643562007293 H-loop/switch region; other site 643562007294 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 643562007295 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 643562007296 intersubunit interface [polypeptide binding]; other site 643562007297 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 643562007298 active site 643562007299 SAM binding site [chemical binding]; other site 643562007300 homodimer interface [polypeptide binding]; other site 643562007301 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 643562007302 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 643562007303 active site 643562007304 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 643562007305 active site 643562007306 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 643562007307 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 643562007308 putative DNA binding site [nucleotide binding]; other site 643562007309 putative Zn2+ binding site [ion binding]; other site 643562007310 Methyltransferase domain; Region: Methyltransf_23; pfam13489 643562007311 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 643562007312 S-adenosylmethionine binding site [chemical binding]; other site 643562007313 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 643562007314 Mitochondrial small ribosomal subunit Rsm22; Region: Rsm22; cl17847 643562007315 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 643562007316 lipoyl synthase; Provisional; Region: PRK05481 643562007317 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 643562007318 FeS/SAM binding site; other site 643562007319 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 643562007320 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 643562007321 ligand binding site [chemical binding]; other site 643562007322 flexible hinge region; other site 643562007323 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 643562007324 putative switch regulator; other site 643562007325 non-specific DNA interactions [nucleotide binding]; other site 643562007326 DNA binding site [nucleotide binding] 643562007327 sequence specific DNA binding site [nucleotide binding]; other site 643562007328 putative cAMP binding site [chemical binding]; other site 643562007329 DsrE/DsrF-like family; Region: DrsE; cl00672 643562007330 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 643562007331 Sodium Bile acid symporter family; Region: SBF; cl17470 643562007332 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 643562007333 Ligand Binding Site [chemical binding]; other site 643562007334 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 643562007335 DHH family; Region: DHH; pfam01368 643562007336 DHHA1 domain; Region: DHHA1; pfam02272 643562007337 HDOD domain; Region: HDOD; pfam08668 643562007338 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 643562007339 Zn2+ binding site [ion binding]; other site 643562007340 Mg2+ binding site [ion binding]; other site 643562007341 Tetratricopeptide repeat; Region: TPR_12; pfam13424 643562007342 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 643562007343 binding surface 643562007344 TPR motif; other site 643562007345 Tetratricopeptide repeat; Region: TPR_12; pfam13424 643562007346 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...; Region: OMP_decarboxylase_like; cd04725 643562007347 active site 643562007348 dimer interface [polypeptide binding]; other site 643562007349 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 643562007350 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 643562007351 catalytic site [active] 643562007352 G-X2-G-X-G-K; other site 643562007353 hypothetical protein; Provisional; Region: PRK04323 643562007354 hypothetical protein; Provisional; Region: PRK11820 643562007355 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 643562007356 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 643562007357 Domain of unknown function (DUF4416); Region: DUF4416; pfam14385 643562007358 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 643562007359 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 643562007360 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 643562007361 FeS/SAM binding site; other site 643562007362 TPR repeat; Region: TPR_11; pfam13414 643562007363 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 643562007364 TPR motif; other site 643562007365 binding surface 643562007366 TPR repeat; Region: TPR_11; pfam13414 643562007367 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 643562007368 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 643562007369 Ligand Binding Site [chemical binding]; other site 643562007370 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 643562007371 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 643562007372 dimer interface [polypeptide binding]; other site 643562007373 active site 643562007374 metal binding site [ion binding]; metal-binding site 643562007375 Peptidase family C69; Region: Peptidase_C69; cl17793 643562007376 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 643562007377 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 643562007378 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 643562007379 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 643562007380 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 643562007381 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 643562007382 nucleotide binding site [chemical binding]; other site 643562007383 NEF interaction site [polypeptide binding]; other site 643562007384 SBD interface [polypeptide binding]; other site 643562007385 GrpE; Region: GrpE; pfam01025 643562007386 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 643562007387 dimer interface [polypeptide binding]; other site 643562007388 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 643562007389 Tetratricopeptide repeat; Region: TPR_12; pfam13424 643562007390 Tetratricopeptide repeat; Region: TPR_12; pfam13424 643562007391 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 643562007392 binding surface 643562007393 TPR motif; other site 643562007394 Tetratricopeptide repeat; Region: TPR_12; pfam13424 643562007395 Tetratricopeptide repeat; Region: TPR_12; pfam13424 643562007396 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 643562007397 binding surface 643562007398 TPR motif; other site 643562007399 Tetratricopeptide repeat; Region: TPR_12; pfam13424 643562007400 Tetratricopeptide repeat; Region: TPR_12; pfam13424 643562007401 Tetratricopeptide repeat; Region: TPR_10; pfam13374 643562007402 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 643562007403 binding surface 643562007404 TPR motif; other site 643562007405 Tetratricopeptide repeat; Region: TPR_12; pfam13424 643562007406 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 643562007407 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 643562007408 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 643562007409 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 643562007410 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 643562007411 putative substrate translocation pore; other site 643562007412 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 643562007413 Clp amino terminal domain; Region: Clp_N; pfam02861 643562007414 Clp amino terminal domain; Region: Clp_N; pfam02861 643562007415 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 643562007416 Walker A motif; other site 643562007417 ATP binding site [chemical binding]; other site 643562007418 Walker B motif; other site 643562007419 arginine finger; other site 643562007420 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 643562007421 Walker A motif; other site 643562007422 ATP binding site [chemical binding]; other site 643562007423 Walker B motif; other site 643562007424 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 643562007425 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 643562007426 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 643562007427 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 643562007428 HSP70 interaction site [polypeptide binding]; other site 643562007429 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 643562007430 substrate binding site [polypeptide binding]; other site 643562007431 dimer interface [polypeptide binding]; other site 643562007432 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 643562007433 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 643562007434 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: PhosphMutase; cl17294 643562007435 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 643562007436 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 643562007437 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 643562007438 RNA binding surface [nucleotide binding]; other site 643562007439 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 643562007440 active site 643562007441 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 643562007442 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 643562007443 CoA-binding site [chemical binding]; other site 643562007444 ATP-binding [chemical binding]; other site 643562007445 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 643562007446 active site 643562007447 Permease family; Region: Xan_ur_permease; pfam00860 643562007448 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 643562007449 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 643562007450 putative metal binding site; other site 643562007451 Mechanosensitive ion channel; Region: MS_channel; pfam00924 643562007452 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 643562007453 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 643562007454 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 643562007455 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 643562007456 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 643562007457 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 643562007458 BON domain; Region: BON; pfam04972 643562007459 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 643562007460 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 643562007461 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; cd01610 643562007462 active site 643562007463 Protein of unknown function DUF115; Region: MAF_flag10; pfam01973 643562007464 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 643562007465 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 643562007466 dimer interface [polypeptide binding]; other site 643562007467 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643562007468 catalytic residue [active] 643562007469 cysteinyl-tRNA synthetase; Region: cysS; TIGR00435 643562007470 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 643562007471 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 643562007472 putative catalytic cysteine [active] 643562007473 Bacterial transcriptional activator domain; Region: BTAD; smart01043 643562007474 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 643562007475 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 643562007476 dimer interface [polypeptide binding]; other site 643562007477 PYR/PP interface [polypeptide binding]; other site 643562007478 TPP binding site [chemical binding]; other site 643562007479 substrate binding site [chemical binding]; other site 643562007480 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 643562007481 TPP-binding site; other site 643562007482 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 643562007483 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 643562007484 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 643562007485 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 643562007486 Walker A motif; other site 643562007487 ATP binding site [chemical binding]; other site 643562007488 Walker B motif; other site 643562007489 arginine finger; other site 643562007490 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 643562007491 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 643562007492 active site 643562007493 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 643562007494 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 643562007495 active site 643562007496 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 643562007497 active site 643562007498 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...; Region: CSP_CDS; cd04458 643562007499 DNA-binding site [nucleotide binding]; DNA binding site 643562007500 RNA-binding motif; other site 643562007501 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 643562007502 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 643562007503 Walker A/P-loop; other site 643562007504 ATP binding site [chemical binding]; other site 643562007505 Q-loop/lid; other site 643562007506 ABC transporter signature motif; other site 643562007507 Walker B; other site 643562007508 D-loop; other site 643562007509 H-loop/switch region; other site 643562007510 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 643562007511 Walker A/P-loop; other site 643562007512 ATP binding site [chemical binding]; other site 643562007513 Q-loop/lid; other site 643562007514 ABC transporter signature motif; other site 643562007515 Walker B; other site 643562007516 D-loop; other site 643562007517 H-loop/switch region; other site 643562007518 Uncharacterized conserved protein [Function unknown]; Region: COG2006 643562007519 Domain of unknown function (DUF362); Region: DUF362; pfam04015 643562007520 Acylphosphatase; Region: Acylphosphatase; pfam00708 643562007521 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 643562007522 HypF finger; Region: zf-HYPF; pfam07503 643562007523 HypF finger; Region: zf-HYPF; pfam07503 643562007524 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 643562007525 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 643562007526 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 643562007527 ligand binding site [chemical binding]; other site 643562007528 NAD binding site [chemical binding]; other site 643562007529 dimerization interface [polypeptide binding]; other site 643562007530 catalytic site [active] 643562007531 ACT_3PGDH-like CD includes the C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-like; cd04879 643562007532 L-serine binding site [chemical binding]; other site 643562007533 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 643562007534 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 643562007535 catalytic residue [active] 643562007536 prolyl-tRNA synthetase; Provisional; Region: PRK09194 643562007537 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...; Region: ProRS_core_prok; cd00779 643562007538 dimer interface [polypeptide binding]; other site 643562007539 motif 1; other site 643562007540 active site 643562007541 motif 2; other site 643562007542 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 643562007543 putative deacylase active site [active] 643562007544 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...; Region: class_II_aaRS-like_core; cl00268 643562007545 active site 643562007546 motif 3; other site 643562007547 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 643562007548 anticodon binding site; other site 643562007549 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 643562007550 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 643562007551 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 643562007552 Cache domain; Region: Cache_1; pfam02743 643562007553 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 643562007554 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 643562007555 dimerization interface [polypeptide binding]; other site 643562007556 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643562007557 dimer interface [polypeptide binding]; other site 643562007558 putative CheW interface [polypeptide binding]; other site 643562007559 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 643562007560 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 643562007561 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 643562007562 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 643562007563 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 643562007564 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 643562007565 NADH dehydrogenase; Region: NADHdh; cl00469 643562007566 NADH:ubiquinone oxidoreductase subunit 2 (chain N) [Energy production and conversion]; Region: NuoN; COG1007 643562007567 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 643562007568 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 643562007569 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 643562007570 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 643562007571 Active Sites [active] 643562007572 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 643562007573 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 643562007574 HTH-like domain; Region: HTH_21; pfam13276 643562007575 Integrase core domain; Region: rve; pfam00665 643562007576 Integrase core domain; Region: rve_3; pfam13683 643562007577 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 643562007578 DNA-binding interface [nucleotide binding]; DNA binding site 643562007579 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 643562007580 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 643562007581 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; cl01542 643562007582 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 643562007583 Phage protein GP46; Region: GP46; pfam07409 643562007584 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 643562007585 Bacteriophage Mu Gp45 protein; Region: Phage_Mu_Gp45; cl15410 643562007586 Mu-like prophage tail protein gpP [General function prediction only]; Region: COG4379 643562007587 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 643562007588 DNA circulation protein N-terminus; Region: DNA_circ_N; pfam07157 643562007589 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 643562007590 Mu-like prophage FluMu protein gp41 [Function unknown]; Region: COG4518 643562007591 Phage tail tube protein; Region: Tail_tube; pfam10618 643562007592 Mu-like prophage tail sheath protein gpL [General function prediction only]; Region: COG4386 643562007593 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 643562007594 Phage tail sheath protein; Region: Phage_sheath_1; pfam04984 643562007595 Protein of unknown function (DUF2635); Region: DUF2635; pfam10948 643562007596 Domain of unknown function (DUF1834); Region: DUF1834; cl02087 643562007597 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 643562007598 Protein of unknown function (DUF1320); Region: DUF1320; pfam07030 643562007599 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; pfam10124 643562007600 Mu-like prophage I protein; Region: Mu-like_Pro; pfam10123 643562007601 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 643562007602 Protein of unknown function (DUF935); Region: DUF935; pfam06074 643562007603 Mu-like prophage protein gp29 [Function unknown]; Region: COG4383 643562007604 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 643562007605 Protein of unknown function (DUF3486); Region: DUF3486; pfam11985 643562007606 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...; Region: LT_GEWL; cd00254 643562007607 N-acetyl-D-glucosamine binding site [chemical binding]; other site 643562007608 catalytic residue [active] 643562007609 Protein of unknown function (DUF4063); Region: DUF4063; pfam13272 643562007610 phage-associated protein, BcepMu gp16 family; Region: BcepMu_gp16; TIGR04111 643562007611 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 643562007612 Peptidase S46; Region: Peptidase_S46; pfam10459 643562007613 Integrase core domain; Region: rve; pfam00665 643562007614 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 643562007615 non-specific DNA binding site [nucleotide binding]; other site 643562007616 salt bridge; other site 643562007617 sequence-specific DNA binding site [nucleotide binding]; other site 643562007618 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 643562007619 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 643562007620 AAA ATPase domain; Region: AAA_16; pfam13191 643562007621 Walker A/P-loop; other site 643562007622 ATP binding site [chemical binding]; other site 643562007623 Bacteriophage Mu Gam like protein; Region: Phage_Mu_Gam; pfam07352 643562007624 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 643562007625 IHF dimer interface [polypeptide binding]; other site 643562007626 IHF - DNA interface [nucleotide binding]; other site 643562007627 Protein of unknown function (DUF1018); Region: DUF1018; pfam06252 643562007628 Mor transcription activator family; Region: Mor; cl02360 643562007629 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 643562007630 FAD binding domain; Region: FAD_binding_4; pfam01565 643562007631 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 643562007632 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 643562007633 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 643562007634 Cysteine-rich domain; Region: CCG; pfam02754 643562007635 Cysteine-rich domain; Region: CCG; pfam02754 643562007636 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 643562007637 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 643562007638 putative active site [active] 643562007639 heme pocket [chemical binding]; other site 643562007640 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 643562007641 dimer interface [polypeptide binding]; other site 643562007642 phosphorylation site [posttranslational modification] 643562007643 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 643562007644 ATP binding site [chemical binding]; other site 643562007645 Mg2+ binding site [ion binding]; other site 643562007646 G-X-G motif; other site 643562007647 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 643562007648 CoenzymeA binding site [chemical binding]; other site 643562007649 subunit interaction site [polypeptide binding]; other site 643562007650 PHB binding site; other site 643562007651 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 643562007652 YceG-like family; Region: YceG; pfam02618 643562007653 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 643562007654 dimerization interface [polypeptide binding]; other site 643562007655 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 643562007656 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 643562007657 Catalytic site [active] 643562007658 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 643562007659 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 643562007660 active site 643562007661 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 643562007662 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 643562007663 Ligand Binding Site [chemical binding]; other site 643562007664 TIGR00269 family protein; Region: TIGR00269 643562007665 Response regulator receiver domain; Region: Response_reg; pfam00072 643562007666 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 643562007667 active site 643562007668 phosphorylation site [posttranslational modification] 643562007669 intermolecular recognition site; other site 643562007670 dimerization interface [polypeptide binding]; other site 643562007671 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 643562007672 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 643562007673 catalytic residues [active] 643562007674 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 643562007675 HTH-like domain; Region: HTH_21; pfam13276 643562007676 Integrase core domain; Region: rve; pfam00665 643562007677 Integrase core domain; Region: rve_3; pfam13683 643562007678 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 643562007679 DNA-binding interface [nucleotide binding]; DNA binding site 643562007680 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 643562007681 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 643562007682 putative active site pocket [active] 643562007683 4-fold oligomerization interface [polypeptide binding]; other site 643562007684 metal binding residues [ion binding]; metal-binding site 643562007685 3-fold/trimer interface [polypeptide binding]; other site 643562007686 Sec-independent protein translocase protein (TatC); Region: TatC; pfam00902 643562007687 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 643562007688 GMP synthase; Reviewed; Region: guaA; PRK00074 643562007689 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 643562007690 AMP/PPi binding site [chemical binding]; other site 643562007691 candidate oxyanion hole; other site 643562007692 catalytic triad [active] 643562007693 potential glutamine specificity residues [chemical binding]; other site 643562007694 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 643562007695 ATP Binding subdomain [chemical binding]; other site 643562007696 Ligand Binding sites [chemical binding]; other site 643562007697 Dimerization subdomain; other site 643562007698 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 643562007699 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; cl17186 643562007700 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...; Region: CBS_pair_IMPDH; cd04601 643562007701 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...; Region: IMPDH; cd00381 643562007702 active site 643562007703 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 643562007704 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 643562007705 Walker A/P-loop; other site 643562007706 ATP binding site [chemical binding]; other site 643562007707 Q-loop/lid; other site 643562007708 ABC transporter signature motif; other site 643562007709 Walker B; other site 643562007710 D-loop; other site 643562007711 H-loop/switch region; other site 643562007712 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 643562007713 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 643562007714 Walker A/P-loop; other site 643562007715 ATP binding site [chemical binding]; other site 643562007716 Q-loop/lid; other site 643562007717 ABC transporter signature motif; other site 643562007718 Walker B; other site 643562007719 D-loop; other site 643562007720 H-loop/switch region; other site 643562007721 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 643562007722 TM-ABC transporter signature motif; other site 643562007723 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 643562007724 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 643562007725 TM-ABC transporter signature motif; other site 643562007726 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 643562007727 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 643562007728 dimerization interface [polypeptide binding]; other site 643562007729 ligand binding site [chemical binding]; other site 643562007730 TPR repeat; Region: TPR_11; pfam13414 643562007731 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 643562007732 binding surface 643562007733 TPR motif; other site 643562007734 TPR repeat; Region: TPR_11; pfam13414 643562007735 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 643562007736 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 643562007737 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 643562007738 Walker A/P-loop; other site 643562007739 ATP binding site [chemical binding]; other site 643562007740 Q-loop/lid; other site 643562007741 ABC transporter signature motif; other site 643562007742 Walker B; other site 643562007743 D-loop; other site 643562007744 H-loop/switch region; other site 643562007745 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 643562007746 CcmE; Region: CcmE; cl00994 643562007747 Domain of unknown function DUF21; Region: DUF21; pfam01595 643562007748 FOG: CBS domain [General function prediction only]; Region: COG0517 643562007749 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 643562007750 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 643562007751 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 643562007752 putative active site [active] 643562007753 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 643562007754 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 643562007755 active site 643562007756 (T/H)XGH motif; other site 643562007757 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 643562007758 Peptidase family M50; Region: Peptidase_M50; pfam02163 643562007759 active site 643562007760 putative substrate binding region [chemical binding]; other site 643562007761 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 643562007762 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 643562007763 active site 643562007764 HIGH motif; other site 643562007765 dimer interface [polypeptide binding]; other site 643562007766 KMSKS motif; other site 643562007767 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 643562007768 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 643562007769 S4 domain; Region: S4_2; cl17325 643562007770 aspartate aminotransferase; Provisional; Region: PRK05764 643562007771 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 643562007772 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643562007773 homodimer interface [polypeptide binding]; other site 643562007774 catalytic residue [active] 643562007775 VacJ like lipoprotein; Region: VacJ; cl01073 643562007776 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 643562007777 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 643562007778 methionine sulfoxide reductase B; Provisional; Region: PRK00222 643562007779 SelR domain; Region: SelR; pfam01641 643562007780 Late competence development protein ComFB; Region: ComFB; pfam10719 643562007781 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 643562007782 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 643562007783 HlyD family secretion protein; Region: HlyD_3; pfam13437 643562007784 Transcriptional regulators [Transcription]; Region: MarR; COG1846 643562007785 MarR family; Region: MarR_2; pfam12802 643562007786 PHP family phosphoesterase with a Zn ribbon [General function prediction only]; Region: COG1379 643562007787 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 643562007788 Part of AAA domain; Region: AAA_19; pfam13245 643562007789 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 643562007790 Family description; Region: UvrD_C_2; pfam13538 643562007791 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 643562007792 Walker A motif; other site 643562007793 ATP binding site [chemical binding]; other site 643562007794 Walker B motif; other site 643562007795 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 643562007796 DHH family; Region: DHH; pfam01368 643562007797 DNA polymerase I; Provisional; Region: PRK05755 643562007798 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 643562007799 active site 643562007800 metal binding site 1 [ion binding]; metal-binding site 643562007801 putative 5' ssDNA interaction site; other site 643562007802 metal binding site 3; metal-binding site 643562007803 metal binding site 2 [ion binding]; metal-binding site 643562007804 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 643562007805 putative DNA binding site [nucleotide binding]; other site 643562007806 putative metal binding site [ion binding]; other site 643562007807 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 643562007808 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 643562007809 active site 643562007810 DNA binding site [nucleotide binding] 643562007811 catalytic site [active] 643562007812 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 643562007813 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 643562007814 active site 643562007815 substrate binding site [chemical binding]; other site 643562007816 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 643562007817 FMN binding site [chemical binding]; other site 643562007818 putative catalytic residues [active] 643562007819 Transcriptional regulators [Transcription]; Region: FadR; COG2186 643562007820 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 643562007821 DNA-binding site [nucleotide binding]; DNA binding site 643562007822 FCD domain; Region: FCD; pfam07729 643562007823 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 643562007824 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 643562007825 putative active site [active] 643562007826 putative metal binding site [ion binding]; other site 643562007827 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 643562007828 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 643562007829 ATP cone domain; Region: ATP-cone; pfam03477 643562007830 Class III ribonucleotide reductase; Region: RNR_III; cd01675 643562007831 effector binding site; other site 643562007832 active site 643562007833 Zn binding site [ion binding]; other site 643562007834 glycine loop; other site 643562007835 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 643562007836 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 643562007837 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 643562007838 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 643562007839 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 643562007840 active site 643562007841 Zn binding site [ion binding]; other site 643562007842 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 643562007843 SnoaL-like domain; Region: SnoaL_3; pfam13474 643562007844 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 643562007845 active site 643562007846 adenylosuccinate lyase; Provisional; Region: PRK07492 643562007847 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 643562007848 tetramer interface [polypeptide binding]; other site 643562007849 active site 643562007850 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 643562007851 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 643562007852 Acylphosphatase; Region: Acylphosphatase; pfam00708 643562007853 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 643562007854 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 643562007855 dimerization interface [polypeptide binding]; other site 643562007856 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 643562007857 dimer interface [polypeptide binding]; other site 643562007858 phosphorylation site [posttranslational modification] 643562007859 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 643562007860 ATP binding site [chemical binding]; other site 643562007861 Mg2+ binding site [ion binding]; other site 643562007862 G-X-G motif; other site 643562007863 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 643562007864 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 643562007865 active site 643562007866 phosphorylation site [posttranslational modification] 643562007867 intermolecular recognition site; other site 643562007868 dimerization interface [polypeptide binding]; other site 643562007869 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 643562007870 Walker A motif; other site 643562007871 ATP binding site [chemical binding]; other site 643562007872 Walker B motif; other site 643562007873 arginine finger; other site 643562007874 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 643562007875 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 643562007876 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 643562007877 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 643562007878 active site 643562007879 phosphorylation site [posttranslational modification] 643562007880 intermolecular recognition site; other site 643562007881 dimerization interface [polypeptide binding]; other site 643562007882 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 643562007883 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 643562007884 GAF domain; Region: GAF_3; pfam13492 643562007885 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 643562007886 Zn2+ binding site [ion binding]; other site 643562007887 Mg2+ binding site [ion binding]; other site 643562007888 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 643562007889 Response regulator receiver domain; Region: Response_reg; pfam00072 643562007890 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 643562007891 active site 643562007892 phosphorylation site [posttranslational modification] 643562007893 intermolecular recognition site; other site 643562007894 dimerization interface [polypeptide binding]; other site 643562007895 Cache domain; Region: Cache_2; cl07034 643562007896 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 643562007897 dimerization interface [polypeptide binding]; other site 643562007898 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 643562007899 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 643562007900 dimer interface [polypeptide binding]; other site 643562007901 phosphorylation site [posttranslational modification] 643562007902 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 643562007903 ATP binding site [chemical binding]; other site 643562007904 Mg2+ binding site [ion binding]; other site 643562007905 G-X-G motif; other site 643562007906 Response regulator receiver domain; Region: Response_reg; pfam00072 643562007907 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 643562007908 active site 643562007909 phosphorylation site [posttranslational modification] 643562007910 intermolecular recognition site; other site 643562007911 dimerization interface [polypeptide binding]; other site 643562007912 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 643562007913 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 643562007914 putative ligand binding site [chemical binding]; other site 643562007915 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 643562007916 dimerization interface [polypeptide binding]; other site 643562007917 PAS fold; Region: PAS_7; pfam12860 643562007918 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 643562007919 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 643562007920 dimer interface [polypeptide binding]; other site 643562007921 phosphorylation site [posttranslational modification] 643562007922 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 643562007923 ATP binding site [chemical binding]; other site 643562007924 Mg2+ binding site [ion binding]; other site 643562007925 G-X-G motif; other site 643562007926 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 643562007927 Response regulator receiver domain; Region: Response_reg; pfam00072 643562007928 active site 643562007929 phosphorylation site [posttranslational modification] 643562007930 intermolecular recognition site; other site 643562007931 dimerization interface [polypeptide binding]; other site 643562007932 glucosamine--fructose-6-phosphate aminotransferase (isomerizing); Region: glmS; TIGR01135 643562007933 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; cd00352 643562007934 active site 643562007935 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 643562007936 active site 643562007937 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 643562007938 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 643562007939 TnsA endonuclease C terminal; Region: Tn7_Tnp_TnsA_C; pfam08721 643562007940 Integrase core domain; Region: rve; pfam00665 643562007941 AAA domain; Region: AAA_22; pfam13401 643562007942 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 643562007943 Walker B motif; other site 643562007944 Tn7 transposition regulator TnsC; Region: Tn7_TnsC_Int; pfam11426 643562007945 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 643562007946 DNA-binding interface [nucleotide binding]; DNA binding site 643562007947 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 643562007948 HTH-like domain; Region: HTH_21; pfam13276 643562007949 Integrase core domain; Region: rve; pfam00665 643562007950 Integrase core domain; Region: rve_3; pfam13683 643562007951 DNA methylase; Region: N6_N4_Mtase; cl17433 643562007952 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 643562007953 Transposase; Region: HTH_Tnp_1; pfam01527 643562007954 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 643562007955 putative transposase OrfB; Reviewed; Region: PHA02517 643562007956 HTH-like domain; Region: HTH_21; pfam13276 643562007957 Integrase core domain; Region: rve; pfam00665 643562007958 Integrase core domain; Region: rve_3; pfam13683 643562007959 putative transposase OrfB; Reviewed; Region: PHA02517 643562007960 HTH-like domain; Region: HTH_21; pfam13276 643562007961 Integrase core domain; Region: rve; pfam00665 643562007962 Integrase core domain; Region: rve_3; pfam13683 643562007963 Transposase; Region: HTH_Tnp_1; pfam01527 643562007964 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 643562007965 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 643562007966 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 643562007967 motif II; other site 643562007968 ribulose bisphosphate carboxylase; Provisional; Region: PRK13475 643562007969 Ribulose bisphosphate carboxylase large chain, Form II; Region: RuBisCO_large_II; cd08211 643562007970 dimer interface [polypeptide binding]; other site 643562007971 active site 643562007972 catalytic residue [active] 643562007973 metal binding site [ion binding]; metal-binding site 643562007974 phosphoribulokinase; Provisional; Region: PRK07429 643562007975 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 643562007976 active site 643562007977 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 643562007978 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 643562007979 putative active site [active] 643562007980 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 643562007981 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 643562007982 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 643562007983 Walker A motif; other site 643562007984 ATP binding site [chemical binding]; other site 643562007985 Walker B motif; other site 643562007986 arginine finger; other site 643562007987 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 643562007988 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 643562007989 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 643562007990 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 643562007991 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 643562007992 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 643562007993 substrate binding site [chemical binding]; other site 643562007994 hexamer interface [polypeptide binding]; other site 643562007995 metal binding site [ion binding]; metal-binding site 643562007996 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 643562007997 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 643562007998 intersubunit interface [polypeptide binding]; other site 643562007999 active site 643562008000 zinc binding site [ion binding]; other site 643562008001 Na+ binding site [ion binding]; other site 643562008002 pyruvate kinase; Provisional; Region: PRK05826 643562008003 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; cl17342 643562008004 domain interfaces; other site 643562008005 active site 643562008006 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 643562008007 Phosphoglycerate kinase; Region: PGK; pfam00162 643562008008 substrate binding site [chemical binding]; other site 643562008009 hinge regions; other site 643562008010 ADP binding site [chemical binding]; other site 643562008011 catalytic site [active] 643562008012 transketolase; Reviewed; Region: PRK12753 643562008013 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 643562008014 TPP-binding site [chemical binding]; other site 643562008015 dimer interface [polypeptide binding]; other site 643562008016 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 643562008017 PYR/PP interface [polypeptide binding]; other site 643562008018 dimer interface [polypeptide binding]; other site 643562008019 TPP binding site [chemical binding]; other site 643562008020 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 643562008021 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 643562008022 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 643562008023 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 643562008024 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 643562008025 HTH-like domain; Region: HTH_21; pfam13276 643562008026 Integrase core domain; Region: rve; pfam00665 643562008027 Integrase core domain; Region: rve_3; pfam13683 643562008028 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 643562008029 DNA-binding interface [nucleotide binding]; DNA binding site 643562008030 HTH-like domain; Region: HTH_21; pfam13276 643562008031 Integrase core domain; Region: rve; pfam00665 643562008032 Integrase core domain; Region: rve_3; pfam13683 643562008033 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 643562008034 DNA-binding interface [nucleotide binding]; DNA binding site 643562008035 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 643562008036 Transposase; Region: DDE_Tnp_ISL3; pfam01610 643562008037 haemagglutination activity domain; Region: Haemagg_act; pfam05860 643562008038 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 643562008039 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 643562008040 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 643562008041 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 643562008042 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 643562008043 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 643562008044 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 643562008045 Autotransporter beta-domain; Region: Autotransporter; smart00869 643562008046 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 643562008047 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 643562008048 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 643562008049 trmE is a tRNA modification GTPase; Region: trmE; cd04164 643562008050 G1 box; other site 643562008051 GTP/Mg2+ binding site [chemical binding]; other site 643562008052 Switch I region; other site 643562008053 G2 box; other site 643562008054 Switch II region; other site 643562008055 G3 box; other site 643562008056 G4 box; other site 643562008057 G5 box; other site 643562008058 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 643562008059 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 643562008060 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 643562008061 G-X-X-G motif; other site 643562008062 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 643562008063 RxxxH motif; other site 643562008064 membrane protein insertase; Provisional; Region: PRK01318 643562008065 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 643562008066 Haemolytic domain; Region: Haemolytic; pfam01809 643562008067 Ribonuclease P; Region: Ribonuclease_P; pfam00825 643562008068 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 643562008069 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 643562008070 hypothetical protein; Provisional; Region: PRK04334 643562008071 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 643562008072 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 643562008073 ligand binding site [chemical binding]; other site 643562008074 flexible hinge region; other site 643562008075 Domain of unknown function DUF77; Region: DUF77; pfam01910 643562008076 Flagellin N-methylase; Region: FliB; cl00497 643562008077 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 643562008078 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 643562008079 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 643562008080 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 643562008081 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 643562008082 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 643562008083 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 643562008084 putative substrate-binding site; other site 643562008085 nickel binding site [ion binding]; other site 643562008086 HupF/HypC family; Region: HupF_HypC; pfam01455 643562008087 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 643562008088 CD73 ecto-5'-nucleotidase and related proteins, N-terminal metallophosphatase domain; Region: MPP_CD73_N; cd07409 643562008089 active site 643562008090 metal binding site [ion binding]; metal-binding site 643562008091 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 643562008092 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 643562008093 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 643562008094 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 643562008095 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 643562008096 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 643562008097 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 643562008098 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 643562008099 Zn2+ binding site [ion binding]; other site 643562008100 Mg2+ binding site [ion binding]; other site 643562008101 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 643562008102 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 643562008103 active site 643562008104 catalytic triad [active] 643562008105 oxyanion hole [active] 643562008106 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 643562008107 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 643562008108 tetramer interface [polypeptide binding]; other site 643562008109 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643562008110 catalytic residue [active] 643562008111 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 643562008112 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 643562008113 Pyruvoyl-dependent arginine decarboxylase (PvlArgDC); Region: PvlArgDC; pfam01862 643562008114 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 643562008115 putative acyl-acceptor binding pocket; other site 643562008116 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 643562008117 Hemerythrin; Region: Hemerythrin; cd12107 643562008118 Fe binding site [ion binding]; other site 643562008119 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 643562008120 oligomerisation interface [polypeptide binding]; other site 643562008121 mobile loop; other site 643562008122 roof hairpin; other site 643562008123 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 643562008124 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 643562008125 ring oligomerisation interface [polypeptide binding]; other site 643562008126 ATP/Mg binding site [chemical binding]; other site 643562008127 stacking interactions; other site 643562008128 hinge regions; other site 643562008129 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 643562008130 Tetratricopeptide repeat; Region: TPR_16; pfam13432 643562008131 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 643562008132 binding surface 643562008133 TPR motif; other site 643562008134 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 643562008135 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 643562008136 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 643562008137 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 643562008138 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 643562008139 active site 643562008140 Zn2+ binding site [ion binding]; other site 643562008141 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 643562008142 dimerization interface [polypeptide binding]; other site 643562008143 putative DNA binding site [nucleotide binding]; other site 643562008144 putative Zn2+ binding site [ion binding]; other site 643562008145 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 643562008146 arsenical-resistance protein; Region: acr3; TIGR00832 643562008147 CAAX protease self-immunity; Region: Abi; pfam02517 643562008148 Methyltransferase domain; Region: Methyltransf_24; pfam13578 643562008149 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 643562008150 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 643562008151 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 643562008152 S-adenosylmethionine binding site [chemical binding]; other site 643562008153 hypothetical protein; Validated; Region: PRK00110 643562008154 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...; Region: RuvC_resolvase; cd00529 643562008155 active site 643562008156 putative DNA-binding cleft [nucleotide binding]; other site 643562008157 dimer interface [polypeptide binding]; other site 643562008158 Holliday junction DNA helicase RuvA; Provisional; Region: ruvA; PRK14602 643562008159 RuvA N terminal domain; Region: RuvA_N; pfam01330 643562008160 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 643562008161 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 643562008162 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 643562008163 Walker A motif; other site 643562008164 ATP binding site [chemical binding]; other site 643562008165 Walker B motif; other site 643562008166 arginine finger; other site 643562008167 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 643562008168 Rubredoxin [Energy production and conversion]; Region: COG1773 643562008169 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 643562008170 iron binding site [ion binding]; other site 643562008171 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 643562008172 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 643562008173 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 643562008174 ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]; Region: ThiQ; COG3840 643562008175 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 643562008176 Walker A/P-loop; other site 643562008177 ATP binding site [chemical binding]; other site 643562008178 Q-loop/lid; other site 643562008179 ABC transporter signature motif; other site 643562008180 Walker B; other site 643562008181 D-loop; other site 643562008182 H-loop/switch region; other site 643562008183 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 643562008184 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643562008185 dimer interface [polypeptide binding]; other site 643562008186 conserved gate region; other site 643562008187 putative PBP binding loops; other site 643562008188 ABC-ATPase subunit interface; other site 643562008189 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 643562008190 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 643562008191 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 643562008192 active site 643562008193 Int/Topo IB signature motif; other site 643562008194 catalytic residues [active] 643562008195 DNA binding site [nucleotide binding] 643562008196 TOBE domain; Region: TOBE; cl01440 643562008197 TOBE domain; Region: TOBE; cl01440 643562008198 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 643562008199 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 643562008200 THF binding site; other site 643562008201 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 643562008202 substrate binding site [chemical binding]; other site 643562008203 THF binding site; other site 643562008204 zinc-binding site [ion binding]; other site 643562008205 Domain of unknown function (DUF389); Region: DUF389; pfam04087 643562008206 PAS domain S-box; Region: sensory_box; TIGR00229 643562008207 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 643562008208 putative active site [active] 643562008209 heme pocket [chemical binding]; other site 643562008210 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643562008211 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643562008212 metal binding site [ion binding]; metal-binding site 643562008213 active site 643562008214 I-site; other site 643562008215 Hemerythrin; Region: Hemerythrin; cd12107 643562008216 Fe binding site [ion binding]; other site 643562008217 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 643562008218 active site 643562008219 catalytic residues [active] 643562008220 Int/Topo IB signature motif; other site 643562008221 DNA binding site [nucleotide binding] 643562008222 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 643562008223 active site 643562008224 DNA binding site [nucleotide binding] 643562008225 Int/Topo IB signature motif; other site 643562008226 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 643562008227 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 643562008228 dimerization interface [polypeptide binding]; other site 643562008229 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 643562008230 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 643562008231 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 643562008232 putative active site [active] 643562008233 heme pocket [chemical binding]; other site 643562008234 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 643562008235 dimer interface [polypeptide binding]; other site 643562008236 phosphorylation site [posttranslational modification] 643562008237 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 643562008238 ATP binding site [chemical binding]; other site 643562008239 Mg2+ binding site [ion binding]; other site 643562008240 G-X-G motif; other site 643562008241 Response regulator receiver domain; Region: Response_reg; pfam00072 643562008242 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 643562008243 active site 643562008244 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 643562008245 phosphorylation site [posttranslational modification] 643562008246 intermolecular recognition site; other site 643562008247 dimerization interface [polypeptide binding]; other site 643562008248 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 643562008249 ATP binding site [chemical binding]; other site 643562008250 Mg2+ binding site [ion binding]; other site 643562008251 G-X-G motif; other site 643562008252 Response regulator receiver domain; Region: Response_reg; pfam00072 643562008253 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 643562008254 active site 643562008255 phosphorylation site [posttranslational modification] 643562008256 intermolecular recognition site; other site 643562008257 dimerization interface [polypeptide binding]; other site 643562008258 PAS fold; Region: PAS_4; pfam08448 643562008259 PAS domain; Region: PAS_9; pfam13426 643562008260 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 643562008261 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 643562008262 ATP binding site [chemical binding]; other site 643562008263 Mg2+ binding site [ion binding]; other site 643562008264 G-X-G motif; other site 643562008265 Response regulator receiver domain; Region: Response_reg; pfam00072 643562008266 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 643562008267 active site 643562008268 phosphorylation site [posttranslational modification] 643562008269 intermolecular recognition site; other site 643562008270 dimerization interface [polypeptide binding]; other site 643562008271 Response regulator receiver domain; Region: Response_reg; pfam00072 643562008272 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 643562008273 active site 643562008274 phosphorylation site [posttranslational modification] 643562008275 intermolecular recognition site; other site 643562008276 dimerization interface [polypeptide binding]; other site 643562008277 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 643562008278 Ligand Binding Site [chemical binding]; other site 643562008279 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 643562008280 Ligand Binding Site [chemical binding]; other site 643562008281 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 643562008282 heme-binding residues [chemical binding]; other site 643562008283 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 643562008284 Cysteine-rich domain; Region: CCG; pfam02754 643562008285 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 643562008286 Dinitrogenase iron-molybdenum cofactor; Region: Nitro_FeMo-Co; pfam02579 643562008287 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 643562008288 PAS domain; Region: PAS_9; pfam13426 643562008289 putative active site [active] 643562008290 heme pocket [chemical binding]; other site 643562008291 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 643562008292 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 643562008293 Walker A motif; other site 643562008294 ATP binding site [chemical binding]; other site 643562008295 Walker B motif; other site 643562008296 arginine finger; other site 643562008297 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 643562008298 LssY C-terminus; Region: LssY_C; pfam14067 643562008299 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 643562008300 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 643562008301 Response regulator receiver domain; Region: Response_reg; pfam00072 643562008302 active site 643562008303 phosphorylation site [posttranslational modification] 643562008304 intermolecular recognition site; other site 643562008305 dimerization interface [polypeptide binding]; other site 643562008306 PAS fold; Region: PAS_4; pfam08448 643562008307 PAS domain S-box; Region: sensory_box; TIGR00229 643562008308 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 643562008309 putative active site [active] 643562008310 heme pocket [chemical binding]; other site 643562008311 PAS domain S-box; Region: sensory_box; TIGR00229 643562008312 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 643562008313 putative active site [active] 643562008314 heme pocket [chemical binding]; other site 643562008315 PAS fold; Region: PAS; pfam00989 643562008316 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 643562008317 putative active site [active] 643562008318 heme pocket [chemical binding]; other site 643562008319 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 643562008320 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 643562008321 Walker A motif; other site 643562008322 ATP binding site [chemical binding]; other site 643562008323 Walker B motif; other site 643562008324 arginine finger; other site 643562008325 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 643562008326 Response regulator receiver domain; Region: Response_reg; pfam00072 643562008327 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 643562008328 active site 643562008329 phosphorylation site [posttranslational modification] 643562008330 intermolecular recognition site; other site 643562008331 dimerization interface [polypeptide binding]; other site 643562008332 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 643562008333 This family is most closely related to the GT1 family of glycosyltransferases. ExpC in Rhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucan (exopolysaccharide II); Region: GT1_ExpC_like; cd03818 643562008334 putative ADP-binding pocket [chemical binding]; other site 643562008335 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 643562008336 active site 643562008337 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 643562008338 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 643562008339 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 643562008340 acyl-activating enzyme (AAE) consensus motif; other site 643562008341 acyl-activating enzyme (AAE) consensus motif; other site 643562008342 putative AMP binding site [chemical binding]; other site 643562008343 putative active site [active] 643562008344 putative CoA binding site [chemical binding]; other site 643562008345 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 643562008346 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 643562008347 substrate binding pocket [chemical binding]; other site 643562008348 membrane-bound complex binding site; other site 643562008349 hinge residues; other site 643562008350 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 643562008351 PAS domain; Region: PAS_9; pfam13426 643562008352 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 643562008353 PAS fold; Region: PAS_3; pfam08447 643562008354 putative active site [active] 643562008355 heme pocket [chemical binding]; other site 643562008356 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 643562008357 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 643562008358 dimer interface [polypeptide binding]; other site 643562008359 phosphorylation site [posttranslational modification] 643562008360 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 643562008361 ATP binding site [chemical binding]; other site 643562008362 Mg2+ binding site [ion binding]; other site 643562008363 G-X-G motif; other site 643562008364 Response regulator receiver domain; Region: Response_reg; pfam00072 643562008365 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 643562008366 active site 643562008367 phosphorylation site [posttranslational modification] 643562008368 intermolecular recognition site; other site 643562008369 dimerization interface [polypeptide binding]; other site 643562008370 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 643562008371 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 643562008372 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 643562008373 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 643562008374 DNA-binding site [nucleotide binding]; DNA binding site 643562008375 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 643562008376 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643562008377 homodimer interface [polypeptide binding]; other site 643562008378 catalytic residue [active] 643562008379 Predicted permeases [General function prediction only]; Region: RarD; COG2962 643562008380 EamA-like transporter family; Region: EamA; cl17759 643562008381 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 643562008382 dimerization interface [polypeptide binding]; other site 643562008383 putative DNA binding site [nucleotide binding]; other site 643562008384 putative Zn2+ binding site [ion binding]; other site 643562008385 acetyl-CoA decarbonylase/synthase complex subunit gamma; Provisional; Region: PRK04165 643562008386 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 643562008387 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 643562008388 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 643562008389 PAS fold; Region: PAS_3; pfam08447 643562008390 putative active site [active] 643562008391 heme pocket [chemical binding]; other site 643562008392 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 643562008393 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 643562008394 dimer interface [polypeptide binding]; other site 643562008395 phosphorylation site [posttranslational modification] 643562008396 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 643562008397 ATP binding site [chemical binding]; other site 643562008398 Mg2+ binding site [ion binding]; other site 643562008399 G-X-G motif; other site 643562008400 Response regulator receiver domain; Region: Response_reg; pfam00072 643562008401 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 643562008402 active site 643562008403 phosphorylation site [posttranslational modification] 643562008404 intermolecular recognition site; other site 643562008405 dimerization interface [polypeptide binding]; other site 643562008406 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 643562008407 dimer interface [polypeptide binding]; other site 643562008408 phosphorylation site [posttranslational modification] 643562008409 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 643562008410 ATP binding site [chemical binding]; other site 643562008411 Mg2+ binding site [ion binding]; other site 643562008412 G-X-G motif; other site 643562008413 Response regulator receiver domain; Region: Response_reg; pfam00072 643562008414 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 643562008415 active site 643562008416 phosphorylation site [posttranslational modification] 643562008417 intermolecular recognition site; other site 643562008418 dimerization interface [polypeptide binding]; other site 643562008419 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 643562008420 Ligand Binding Site [chemical binding]; other site 643562008421 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 643562008422 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 643562008423 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 643562008424 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 643562008425 active site 643562008426 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 643562008427 active site 643562008428 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 643562008429 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 643562008430 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 643562008431 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 643562008432 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 643562008433 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 643562008434 ABC-ATPase subunit interface; other site 643562008435 dimer interface [polypeptide binding]; other site 643562008436 putative PBP binding regions; other site 643562008437 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 643562008438 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 643562008439 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 643562008440 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 643562008441 META domain; Region: META; pfam03724 643562008442 tryptophan synthase subunit beta; Reviewed; Region: PRK12391 643562008443 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 643562008444 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 643562008445 catalytic residue [active] 643562008446 NAD-dependent deacetylase; Provisional; Region: PRK00481 643562008447 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 643562008448 NAD+ binding site [chemical binding]; other site 643562008449 substrate binding site [chemical binding]; other site 643562008450 Zn binding site [ion binding]; other site 643562008451 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 643562008452 isocitrate dehydrogenase; Validated; Region: PRK06451 643562008453 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 643562008454 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 643562008455 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 643562008456 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 643562008457 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 643562008458 active site 643562008459 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 643562008460 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 643562008461 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 643562008462 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 643562008463 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 643562008464 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 643562008465 Walker A/P-loop; other site 643562008466 ATP binding site [chemical binding]; other site 643562008467 Q-loop/lid; other site 643562008468 ABC transporter signature motif; other site 643562008469 Walker B; other site 643562008470 D-loop; other site 643562008471 H-loop/switch region; other site 643562008472 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 643562008473 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 643562008474 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 643562008475 TM-ABC transporter signature motif; other site 643562008476 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 643562008477 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 643562008478 TM-ABC transporter signature motif; other site 643562008479 glyoxylate reductase; Reviewed; Region: PRK13243 643562008480 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 643562008481 dimerization interface [polypeptide binding]; other site 643562008482 ligand binding site [chemical binding]; other site 643562008483 NADP binding site [chemical binding]; other site 643562008484 catalytic site [active] 643562008485 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 643562008486 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 643562008487 MOFRL family; Region: MOFRL; pfam05161 643562008488 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 643562008489 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 643562008490 CHASE domain; Region: CHASE; cl01369 643562008491 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 643562008492 PAS fold; Region: PAS_3; pfam08447 643562008493 putative active site [active] 643562008494 heme pocket [chemical binding]; other site 643562008495 PAS domain S-box; Region: sensory_box; TIGR00229 643562008496 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 643562008497 putative active site [active] 643562008498 heme pocket [chemical binding]; other site 643562008499 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 643562008500 PAS fold; Region: PAS_3; pfam08447 643562008501 putative active site [active] 643562008502 heme pocket [chemical binding]; other site 643562008503 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643562008504 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643562008505 metal binding site [ion binding]; metal-binding site 643562008506 active site 643562008507 I-site; other site 643562008508 Predicted membrane protein [Function unknown]; Region: COG1971 643562008509 Domain of unknown function DUF; Region: DUF204; pfam02659 643562008510 Domain of unknown function DUF; Region: DUF204; pfam02659 643562008511 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 643562008512 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 643562008513 active site 643562008514 phosphorylation site [posttranslational modification] 643562008515 intermolecular recognition site; other site 643562008516 dimerization interface [polypeptide binding]; other site 643562008517 HD domain; Region: HD_5; pfam13487 643562008518 Response regulator receiver domain; Region: Response_reg; pfam00072 643562008519 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 643562008520 active site 643562008521 phosphorylation site [posttranslational modification] 643562008522 intermolecular recognition site; other site 643562008523 dimerization interface [polypeptide binding]; other site 643562008524 HDOD domain; Region: HDOD; pfam08668 643562008525 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 643562008526 Zn2+ binding site [ion binding]; other site 643562008527 Mg2+ binding site [ion binding]; other site 643562008528 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 643562008529 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 643562008530 ATP binding site [chemical binding]; other site 643562008531 Mg2+ binding site [ion binding]; other site 643562008532 G-X-G motif; other site 643562008533 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 643562008534 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 643562008535 active site 643562008536 phosphorylation site [posttranslational modification] 643562008537 intermolecular recognition site; other site 643562008538 dimerization interface [polypeptide binding]; other site 643562008539 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 643562008540 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 643562008541 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 643562008542 active site 643562008543 dimerization interface [polypeptide binding]; other site 643562008544 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 643562008545 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 643562008546 ATP binding site [chemical binding]; other site 643562008547 Walker B motif; other site 643562008548 arginine finger; other site 643562008549 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 643562008550 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 643562008551 Coenzyme A binding pocket [chemical binding]; other site 643562008552 SET domain; Region: SET; pfam00856 643562008553 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 643562008554 Uncharacterized conserved protein [Function unknown]; Region: COG1284 643562008555 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 643562008556 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 643562008557 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 643562008558 Glycogen debranching enzyme N terminal; Region: GDE_N; pfam12439 643562008559 glycogen debranching enzyme, archaeal type, putative; Region: gde_arch; TIGR01561 643562008560 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 643562008561 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 643562008562 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 643562008563 N-terminal catalytic domain of a thermoactive alpha-amylase from Methanococcus jannaschii and similar proteins; glycoside hydrolase family 57 (GH57); Region: GH57N_MJA1_like; cd10795 643562008564 Glycosyl hydrolase family 57; Region: Glyco_hydro_57; pfam03065 643562008565 putative active site [active] 643562008566 catalytic site [active] 643562008567 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 643562008568 Glycogen synthase; Region: Glycogen_syn; pfam05693 643562008569 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 643562008570 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 643562008571 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 643562008572 active site 643562008573 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 643562008574 phosphorylation site [posttranslational modification] 643562008575 intermolecular recognition site; other site 643562008576 dimerization interface [polypeptide binding]; other site 643562008577 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 643562008578 Walker B motif; other site 643562008579 arginine finger; other site 643562008580 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 643562008581 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 643562008582 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 643562008583 FeS/SAM binding site; other site 643562008584 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 643562008585 D-alanine-D-alanine ligase and related ATP-grasp enzymes [Cell envelope biogenesis, outer membrane]; Region: DdlA; COG1181 643562008586 ATP-grasp domain; Region: ATP-grasp_4; cl17255 643562008587 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 643562008588 ATP-grasp domain; Region: ATP-grasp_4; cl17255 643562008589 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 643562008590 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 643562008591 Coenzyme A binding pocket [chemical binding]; other site 643562008592 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 643562008593 Coenzyme A binding pocket [chemical binding]; other site 643562008594 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 643562008595 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 643562008596 active site 643562008597 Zn binding site [ion binding]; other site 643562008598 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 643562008599 catalytic core [active] 643562008600 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 643562008601 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 643562008602 motif II; other site 643562008603 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 643562008604 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 643562008605 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 643562008606 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 643562008607 Sucrose-6F-phosphate phosphohydrolase; Region: S6PP; pfam05116 643562008608 Uncharacterized conserved protein [Function unknown]; Region: COG5316 643562008609 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 643562008610 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 643562008611 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 643562008612 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 643562008613 active site 643562008614 phosphorylation site [posttranslational modification] 643562008615 intermolecular recognition site; other site 643562008616 dimerization interface [polypeptide binding]; other site 643562008617 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643562008618 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643562008619 metal binding site [ion binding]; metal-binding site 643562008620 active site 643562008621 I-site; other site 643562008622 Bacteriophage CI repressor helix-turn-helix domain; Region: Phage_CI_repr; pfam07022 643562008623 Predicted transcriptional regulator [Transcription]; Region: COG2932 643562008624 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 643562008625 Catalytic site [active] 643562008626 ribonuclease R; Region: RNase_R; TIGR02063 643562008627 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 643562008628 RNB domain; Region: RNB; pfam00773 643562008629 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...; Region: S1_RNase_R; cd04471 643562008630 RNA binding site [nucleotide binding]; other site 643562008631 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 643562008632 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 643562008633 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 643562008634 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 643562008635 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 643562008636 GAF domain; Region: GAF; pfam01590 643562008637 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 643562008638 Histidine kinase; Region: HisKA_2; pfam07568 643562008639 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 643562008640 ATP binding site [chemical binding]; other site 643562008641 Mg2+ binding site [ion binding]; other site 643562008642 G-X-G motif; other site 643562008643 hypothetical protein; Provisional; Region: PRK11770 643562008644 Domain of unknown function (DUF307); Region: DUF307; pfam03733 643562008645 Domain of unknown function (DUF307); Region: DUF307; pfam03733 643562008646 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 643562008647 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 643562008648 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 643562008649 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 643562008650 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 643562008651 Ligand Binding Site [chemical binding]; other site 643562008652 Hemerythrin; Region: Hemerythrin; cd12107 643562008653 Fe binding site [ion binding]; other site 643562008654 recombinase A; Provisional; Region: recA; PRK09354 643562008655 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 643562008656 hexamer interface [polypeptide binding]; other site 643562008657 Walker A motif; other site 643562008658 ATP binding site [chemical binding]; other site 643562008659 Walker B motif; other site 643562008660 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 643562008661 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...; Region: AlaRS_core; cd00673 643562008662 motif 1; other site 643562008663 active site 643562008664 motif 2; other site 643562008665 motif 3; other site 643562008666 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 643562008667 DHHA1 domain; Region: DHHA1; pfam02272 643562008668 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 643562008669 23S rRNA interface [nucleotide binding]; other site 643562008670 L3 interface [polypeptide binding]; other site 643562008671 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 643562008672 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 643562008673 Radical SAM superfamily; Region: Radical_SAM; pfam04055 643562008674 FeS/SAM binding site; other site 643562008675 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 643562008676 HD domain; Region: HD_3; pfam13023 643562008677 cobalt transport protein CbiM; Validated; Region: PRK06265 643562008678 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 643562008679 Transcriptional regulator; Region: Rrf2; cl17282 643562008680 Rrf2 family protein; Region: rrf2_super; TIGR00738 643562008681 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 643562008682 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 643562008683 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 643562008684 Domain of unknown function (DUF697); Region: DUF697; cl12064 643562008685 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 643562008686 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 643562008687 Dinitrogenase iron-molybdenum cofactor; Region: Nitro_FeMo-Co; pfam02579 643562008688 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 643562008689 PAS domain; Region: PAS_9; pfam13426 643562008690 putative active site [active] 643562008691 heme pocket [chemical binding]; other site 643562008692 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 643562008693 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 643562008694 Walker A motif; other site 643562008695 ATP binding site [chemical binding]; other site 643562008696 Walker B motif; other site 643562008697 arginine finger; other site 643562008698 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 643562008699 hydrogenase nickel insertion protein HypA; Region: hypA; TIGR00100 643562008700 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 643562008701 CHASE4 domain; Region: CHASE4; pfam05228 643562008702 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 643562008703 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 643562008704 dimer interface [polypeptide binding]; other site 643562008705 phosphorylation site [posttranslational modification] 643562008706 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 643562008707 ATP binding site [chemical binding]; other site 643562008708 Mg2+ binding site [ion binding]; other site 643562008709 G-X-G motif; other site 643562008710 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 643562008711 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 643562008712 Alginate lyase; Region: Alginate_lyase; pfam05426 643562008713 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 643562008714 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 643562008715 Coenzyme A binding pocket [chemical binding]; other site 643562008716 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 643562008717 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643562008718 dimer interface [polypeptide binding]; other site 643562008719 conserved gate region; other site 643562008720 putative PBP binding loops; other site 643562008721 ABC-ATPase subunit interface; other site 643562008722 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 643562008723 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643562008724 dimer interface [polypeptide binding]; other site 643562008725 conserved gate region; other site 643562008726 putative PBP binding loops; other site 643562008727 ABC-ATPase subunit interface; other site 643562008728 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 643562008729 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 643562008730 AmmeMemoRadiSam system radical SAM enzyme; Region: AmmeMemoSam_rS; TIGR04337 643562008731 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 643562008732 FeS/SAM binding site; other site 643562008733 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 643562008734 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 643562008735 dimerization interface [polypeptide binding]; other site 643562008736 putative ATP binding site [chemical binding]; other site 643562008737 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 643562008738 TRAM domain; Region: TRAM; pfam01938 643562008739 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 643562008740 S-adenosylmethionine binding site [chemical binding]; other site 643562008741 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 643562008742 non-specific DNA binding site [nucleotide binding]; other site 643562008743 salt bridge; other site 643562008744 sequence-specific DNA binding site [nucleotide binding]; other site 643562008745 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 643562008746 FOG: CBS domain [General function prediction only]; Region: COG0517 643562008747 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; cd02205 643562008748 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 643562008749 Zn2+ binding site [ion binding]; other site 643562008750 Mg2+ binding site [ion binding]; other site 643562008751 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 643562008752 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; cl17342 643562008753 domain interfaces; other site 643562008754 active site 643562008755 cell division protein MraZ; Reviewed; Region: PRK00326 643562008756 MraZ protein; Region: MraZ; pfam02381 643562008757 MraZ protein; Region: MraZ; pfam02381 643562008758 MraW methylase family; Region: Methyltransf_5; cl17771 643562008759 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 643562008760 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 643562008761 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 643562008762 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 643562008763 PASTA domain of PBP2x-like proteins, first repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_1; cd06576 643562008764 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 643562008765 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 643562008766 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 643562008767 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 643562008768 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 643562008769 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 643562008770 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 643562008771 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 643562008772 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 643562008773 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 643562008774 Mg++ binding site [ion binding]; other site 643562008775 putative catalytic motif [active] 643562008776 putative substrate binding site [chemical binding]; other site 643562008777 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 643562008778 D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain; Region: 2-Hacid_dh_C; pfam02826 643562008779 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 643562008780 cell division protein FtsW; Region: ftsW; TIGR02614 643562008781 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 643562008782 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 643562008783 active site 643562008784 homodimer interface [polypeptide binding]; other site 643562008785 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 643562008786 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 643562008787 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 643562008788 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 643562008789 UDP-N-acetylmuramate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: MurB; COG0812 643562008790 FAD binding domain; Region: FAD_binding_4; pfam01565 643562008791 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 643562008792 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 643562008793 Cell division protein FtsQ; Region: FtsQ; pfam03799 643562008794 cell division protein FtsA; Region: ftsA; TIGR01174 643562008795 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 643562008796 nucleotide binding site [chemical binding]; other site 643562008797 Cell division protein FtsA; Region: FtsA; pfam14450 643562008798 cell division protein FtsZ; Validated; Region: PRK09330 643562008799 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 643562008800 nucleotide binding site [chemical binding]; other site 643562008801 SulA interaction site; other site 643562008802 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 643562008803 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 643562008804 FeS/SAM binding site; other site 643562008805 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 643562008806 Transposase; Region: DEDD_Tnp_IS110; pfam01548 643562008807 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 643562008808 HTH-like domain; Region: HTH_21; pfam13276 643562008809 Integrase core domain; Region: rve; pfam00665 643562008810 Integrase core domain; Region: rve_3; pfam13683 643562008811 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 643562008812 DNA-binding interface [nucleotide binding]; DNA binding site 643562008813 Phage protein Gp37/Gp68; Region: Gp37_Gp68; pfam07505 643562008814 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 643562008815 Transposase; Region: DEDD_Tnp_IS110; pfam01548 643562008816 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 643562008817 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 643562008818 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 643562008819 dimer interface [polypeptide binding]; other site 643562008820 active site 643562008821 glycine-pyridoxal phosphate binding site [chemical binding]; other site 643562008822 folate binding site [chemical binding]; other site 643562008823 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 643562008824 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 643562008825 dimer interface [polypeptide binding]; other site 643562008826 active site 643562008827 acyl carrier protein; Provisional; Region: acpP; PRK00982 643562008828 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 643562008829 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 643562008830 NAD(P) binding site [chemical binding]; other site 643562008831 homotetramer interface [polypeptide binding]; other site 643562008832 homodimer interface [polypeptide binding]; other site 643562008833 active site 643562008834 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 643562008835 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 643562008836 dimer interface [polypeptide binding]; other site 643562008837 active site 643562008838 CoA binding pocket [chemical binding]; other site 643562008839 putative phosphate acyltransferase; Provisional; Region: PRK05331 643562008840 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 643562008841 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 643562008842 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 643562008843 Short C-terminal domain; Region: SHOCT; pfam09851 643562008844 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 643562008845 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 643562008846 [4Fe-4S] binding site [ion binding]; other site 643562008847 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 643562008848 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 643562008849 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 643562008850 molybdopterin cofactor binding site; other site 643562008851 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 643562008852 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 643562008853 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 643562008854 active site 643562008855 HIGH motif; other site 643562008856 nucleotide binding site [chemical binding]; other site 643562008857 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 643562008858 active site 643562008859 KMSKS motif; other site 643562008860 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 643562008861 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 643562008862 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 643562008863 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 643562008864 active site 643562008865 phosphorylation site [posttranslational modification] 643562008866 intermolecular recognition site; other site 643562008867 dimerization interface [polypeptide binding]; other site 643562008868 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 643562008869 Walker A motif; other site 643562008870 ATP binding site [chemical binding]; other site 643562008871 Walker B motif; other site 643562008872 arginine finger; other site 643562008873 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 643562008874 PAS domain; Region: PAS; smart00091 643562008875 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 643562008876 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 643562008877 dimer interface [polypeptide binding]; other site 643562008878 phosphorylation site [posttranslational modification] 643562008879 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 643562008880 ATP binding site [chemical binding]; other site 643562008881 Mg2+ binding site [ion binding]; other site 643562008882 G-X-G motif; other site 643562008883 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 643562008884 dimer interface [polypeptide binding]; other site 643562008885 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 643562008886 catalytic motif [active] 643562008887 Zn binding site [ion binding]; other site 643562008888 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 643562008889 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 643562008890 catalytic motif [active] 643562008891 Zn binding site [ion binding]; other site 643562008892 RibD C-terminal domain; Region: RibD_C; cl17279 643562008893 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 643562008894 S-adenosylmethionine binding site [chemical binding]; other site 643562008895 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 643562008896 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 643562008897 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 643562008898 Lumazine binding domain; Region: Lum_binding; pfam00677 643562008899 Lumazine binding domain; Region: Lum_binding; pfam00677 643562008900 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 643562008901 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 643562008902 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 643562008903 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 643562008904 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 643562008905 dimerization interface [polypeptide binding]; other site 643562008906 active site 643562008907 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 643562008908 homopentamer interface [polypeptide binding]; other site 643562008909 active site 643562008910 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 643562008911 putative RNA binding site [nucleotide binding]; other site 643562008912 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 643562008913 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 643562008914 HIGH motif; other site 643562008915 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 643562008916 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 643562008917 active site 643562008918 KMSKS motif; other site 643562008919 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 643562008920 tRNA binding surface [nucleotide binding]; other site 643562008921 molybdate ABC transporter periplasmic substrate-binding protein; Provisional; Region: PRK04168 643562008922 tungstate ABC transporter binding protein WtpA; Region: tungstate_WtpA; TIGR03730 643562008923 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 643562008924 Autotransporter beta-domain; Region: Autotransporter; pfam03797 643562008925 DNA polymerase III, delta subunit [DNA replication, recombination, and repair]; Region: HolA; COG1466 643562008926 hypothetical protein; Reviewed; Region: PRK00024 643562008927 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 643562008928 MPN+ (JAMM) motif; other site 643562008929 Zinc-binding site [ion binding]; other site 643562008930 Acylphosphatase; Region: Acylphosphatase; pfam00708 643562008931 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 643562008932 Found in ATP-dependent protease La (LON); Region: LON; smart00464 643562008933 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 643562008934 Walker A motif; other site 643562008935 ATP binding site [chemical binding]; other site 643562008936 Walker B motif; other site 643562008937 arginine finger; other site 643562008938 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 643562008939 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 643562008940 TPR motif; other site 643562008941 Tetratricopeptide repeat; Region: TPR_16; pfam13432 643562008942 binding surface 643562008943 Tetratricopeptide repeat; Region: TPR_12; pfam13424 643562008944 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 643562008945 binding surface 643562008946 TPR motif; other site 643562008947 TPR repeat; Region: TPR_11; pfam13414 643562008948 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 643562008949 binding surface 643562008950 TPR motif; other site 643562008951 TPR repeat; Region: TPR_11; pfam13414 643562008952 Tetratricopeptide repeat; Region: TPR_12; pfam13424 643562008953 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 643562008954 binding surface 643562008955 TPR motif; other site 643562008956 TPR repeat; Region: TPR_11; pfam13414 643562008957 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 643562008958 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 643562008959 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 643562008960 domain interfaces; other site 643562008961 active site 643562008962 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 643562008963 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 643562008964 putative dimer interface [polypeptide binding]; other site 643562008965 active site pocket [active] 643562008966 putative cataytic base [active] 643562008967 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 643562008968 shikimate kinase; Reviewed; Region: aroK; PRK00131 643562008969 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 643562008970 ADP binding site [chemical binding]; other site 643562008971 magnesium binding site [ion binding]; other site 643562008972 putative shikimate binding site; other site 643562008973 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 643562008974 active site 643562008975 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 643562008976 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 643562008977 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 643562008978 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 643562008979 acyl-activating enzyme (AAE) consensus motif; other site 643562008980 AMP binding site [chemical binding]; other site 643562008981 active site 643562008982 CoA binding site [chemical binding]; other site 643562008983 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 643562008984 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 643562008985 Walker A/P-loop; other site 643562008986 ATP binding site [chemical binding]; other site 643562008987 Q-loop/lid; other site 643562008988 ABC transporter signature motif; other site 643562008989 Walker B; other site 643562008990 D-loop; other site 643562008991 H-loop/switch region; other site 643562008992 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 643562008993 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 643562008994 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 643562008995 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 643562008996 TM-ABC transporter signature motif; other site 643562008997 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 643562008998 TM-ABC transporter signature motif; other site 643562008999 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 643562009000 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 643562009001 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 643562009002 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 643562009003 acyl-activating enzyme (AAE) consensus motif; other site 643562009004 acyl-activating enzyme (AAE) consensus motif; other site 643562009005 putative AMP binding site [chemical binding]; other site 643562009006 putative active site [active] 643562009007 putative CoA binding site [chemical binding]; other site 643562009008 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 643562009009 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 643562009010 Walker A/P-loop; other site 643562009011 ATP binding site [chemical binding]; other site 643562009012 Q-loop/lid; other site 643562009013 ABC transporter signature motif; other site 643562009014 Walker B; other site 643562009015 D-loop; other site 643562009016 H-loop/switch region; other site 643562009017 FOG: CBS domain [General function prediction only]; Region: COG0517 643562009018 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 643562009019 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 643562009020 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 643562009021 Coenzyme A binding pocket [chemical binding]; other site 643562009022 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 643562009023 nucleoside/Zn binding site; other site 643562009024 dimer interface [polypeptide binding]; other site 643562009025 catalytic motif [active] 643562009026 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 643562009027 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 643562009028 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643562009029 homodimer interface [polypeptide binding]; other site 643562009030 catalytic residue [active] 643562009031 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 643562009032 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 643562009033 Walker A/P-loop; other site 643562009034 ATP binding site [chemical binding]; other site 643562009035 Q-loop/lid; other site 643562009036 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 643562009037 ABC transporter signature motif; other site 643562009038 Walker B; other site 643562009039 D-loop; other site 643562009040 H-loop/switch region; other site 643562009041 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 643562009042 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 643562009043 substrate binding pocket [chemical binding]; other site 643562009044 membrane-bound complex binding site; other site 643562009045 hinge residues; other site 643562009046 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 643562009047 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 643562009048 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 643562009049 substrate binding pocket [chemical binding]; other site 643562009050 membrane-bound complex binding site; other site 643562009051 hinge residues; other site 643562009052 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 643562009053 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 643562009054 active site 1 [active] 643562009055 active site 2 [active] 643562009056 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 643562009057 active site 2 [active] 643562009058 active site 1 [active] 643562009059 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 643562009060 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 643562009061 substrate binding pocket [chemical binding]; other site 643562009062 membrane-bound complex binding site; other site 643562009063 hinge residues; other site 643562009064 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 643562009065 Zn2+ binding site [ion binding]; other site 643562009066 Mg2+ binding site [ion binding]; other site 643562009067 Tetratricopeptide repeat; Region: TPR_16; pfam13432 643562009068 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 643562009069 binding surface 643562009070 Tetratricopeptide repeat; Region: TPR_16; pfam13432 643562009071 TPR motif; other site 643562009072 TPR repeat; Region: TPR_11; pfam13414 643562009073 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 643562009074 N-terminal Early set domain, a glycogen binding domain, associated with the catalytic domain of AMP-activated protein kinase beta subunit; Region: E_set_AMPKbeta_like_N; cd02859 643562009075 glycogen binding site [chemical binding]; other site 643562009076 RNA polymerase sigma factor SigW; Provisional; Region: PRK09641 643562009077 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 643562009078 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 643562009079 DNA binding residues [nucleotide binding] 643562009080 NAD(P)H:flavin oxidoreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_1; cd02150 643562009081 putative FMN binding site [chemical binding]; other site 643562009082 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 643562009083 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 643562009084 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 643562009085 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 643562009086 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 643562009087 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 643562009088 active site 643562009089 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 643562009090 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 643562009091 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 643562009092 GTPase CgtA; Reviewed; Region: obgE; PRK12299 643562009093 GTP1/OBG; Region: GTP1_OBG; pfam01018 643562009094 Obg GTPase; Region: Obg; cd01898 643562009095 G1 box; other site 643562009096 GTP/Mg2+ binding site [chemical binding]; other site 643562009097 Switch I region; other site 643562009098 G2 box; other site 643562009099 G3 box; other site 643562009100 Switch II region; other site 643562009101 G4 box; other site 643562009102 G5 box; other site 643562009103 gamma-glutamyl kinase; Provisional; Region: PRK05429 643562009104 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 643562009105 homotetrameric interface [polypeptide binding]; other site 643562009106 putative phosphate binding site [ion binding]; other site 643562009107 putative allosteric binding site; other site 643562009108 nucleotide binding site [chemical binding]; other site 643562009109 PUA domain; Region: PUA; pfam01472 643562009110 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 643562009111 Major Facilitator Superfamily; Region: MFS_1; pfam07690 643562009112 putative substrate translocation pore; other site 643562009113 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 643562009114 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 643562009115 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 643562009116 homohexameric interface [polypeptide binding]; other site 643562009117 feedback inhibition sensing region; other site 643562009118 nucleotide binding site [chemical binding]; other site 643562009119 N-acetyl-L-glutamate binding site [chemical binding]; other site 643562009120 Hemerythrin; Region: Hemerythrin; cd12107 643562009121 Fe binding site [ion binding]; other site 643562009122 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 643562009123 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 643562009124 dimer interface [polypeptide binding]; other site 643562009125 putative functional site; other site 643562009126 putative MPT binding site; other site 643562009127 APC10-like DOC1 domains in E3 ubiquitin ligases that mediate substrate ubiquitination; Region: APC10-like; cl02148 643562009128 Adenosylhomocysteinase; Provisional; Region: PTZ00075 643562009129 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 643562009130 homotetramer interface [polypeptide binding]; other site 643562009131 ligand binding site [chemical binding]; other site 643562009132 catalytic site [active] 643562009133 NAD binding site [chemical binding]; other site 643562009134 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 643562009135 dimerization interface [polypeptide binding]; other site 643562009136 putative DNA binding site [nucleotide binding]; other site 643562009137 putative Zn2+ binding site [ion binding]; other site 643562009138 Methyltransferase domain; Region: Methyltransf_31; pfam13847 643562009139 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 643562009140 S-adenosylmethionine binding site [chemical binding]; other site 643562009141 Response regulator receiver domain; Region: Response_reg; pfam00072 643562009142 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 643562009143 active site 643562009144 phosphorylation site [posttranslational modification] 643562009145 intermolecular recognition site; other site 643562009146 dimerization interface [polypeptide binding]; other site 643562009147 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 643562009148 anti sigma factor interaction site; other site 643562009149 regulatory phosphorylation site [posttranslational modification]; other site 643562009150 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 643562009151 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 643562009152 catalytic residues [active] 643562009153 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 643562009154 active site residue [active] 643562009155 Methylamine utilisation protein MauE; Region: MauE; pfam07291 643562009156 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 643562009157 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 643562009158 putative active site [active] 643562009159 heme pocket [chemical binding]; other site 643562009160 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 643562009161 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 643562009162 putative active site [active] 643562009163 heme pocket [chemical binding]; other site 643562009164 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 643562009165 dimer interface [polypeptide binding]; other site 643562009166 phosphorylation site [posttranslational modification] 643562009167 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 643562009168 ATP binding site [chemical binding]; other site 643562009169 Mg2+ binding site [ion binding]; other site 643562009170 G-X-G motif; other site 643562009171 Family description; Region: VCBS; pfam13517 643562009172 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 643562009173 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 643562009174 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 643562009175 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 643562009176 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 643562009177 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 643562009178 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 643562009179 DctM-like transporters; Region: DctM; pfam06808 643562009180 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 643562009181 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 643562009182 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 643562009183 hexamer interface [polypeptide binding]; other site 643562009184 ligand binding site [chemical binding]; other site 643562009185 putative active site [active] 643562009186 NAD(P) binding site [chemical binding]; other site 643562009187 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 643562009188 putative DNA binding site [nucleotide binding]; other site 643562009189 dimerization interface [polypeptide binding]; other site 643562009190 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 643562009191 putative Zn2+ binding site [ion binding]; other site 643562009192 AsnC family; Region: AsnC_trans_reg; pfam01037 643562009193 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 643562009194 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 643562009195 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 643562009196 putative active site [active] 643562009197 heme pocket [chemical binding]; other site 643562009198 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 643562009199 dimer interface [polypeptide binding]; other site 643562009200 phosphorylation site [posttranslational modification] 643562009201 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 643562009202 ATP binding site [chemical binding]; other site 643562009203 Mg2+ binding site [ion binding]; other site 643562009204 G-X-G motif; other site 643562009205 Response regulator receiver domain; Region: Response_reg; pfam00072 643562009206 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 643562009207 active site 643562009208 phosphorylation site [posttranslational modification] 643562009209 intermolecular recognition site; other site 643562009210 dimerization interface [polypeptide binding]; other site 643562009211 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 643562009212 TPR motif; other site 643562009213 Tetratricopeptide repeat; Region: TPR_12; pfam13424 643562009214 binding surface 643562009215 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 643562009216 binding surface 643562009217 TPR motif; other site 643562009218 Tetratricopeptide repeat; Region: TPR_12; pfam13424 643562009219 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 643562009220 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 643562009221 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 643562009222 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 643562009223 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 643562009224 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 643562009225 ATP binding site [chemical binding]; other site 643562009226 Walker A motif; other site 643562009227 hexamer interface [polypeptide binding]; other site 643562009228 Walker B motif; other site 643562009229 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 643562009230 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 643562009231 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 643562009232 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 643562009233 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 643562009234 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 643562009235 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 643562009236 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 643562009237 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 643562009238 active site 643562009239 phosphorylation site [posttranslational modification] 643562009240 intermolecular recognition site; other site 643562009241 dimerization interface [polypeptide binding]; other site 643562009242 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 643562009243 Walker A motif; other site 643562009244 ATP binding site [chemical binding]; other site 643562009245 Walker B motif; other site 643562009246 arginine finger; other site 643562009247 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 643562009248 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 643562009249 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 643562009250 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 643562009251 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 643562009252 TadE-like protein; Region: TadE; pfam07811 643562009253 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 643562009254 binding surface 643562009255 Tetratricopeptide repeat; Region: TPR_16; pfam13432 643562009256 TPR motif; other site 643562009257 TPR repeat; Region: TPR_11; pfam13414 643562009258 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 643562009259 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 643562009260 substrate binding pocket [chemical binding]; other site 643562009261 membrane-bound complex binding site; other site 643562009262 hinge residues; other site 643562009263 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 643562009264 4Fe-4S binding domain; Region: Fer4; pfam00037 643562009265 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 643562009266 FMN binding site [chemical binding]; other site 643562009267 dimer interface [polypeptide binding]; other site 643562009268 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 643562009269 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 643562009270 active site 643562009271 HIGH motif; other site 643562009272 nucleotide binding site [chemical binding]; other site 643562009273 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 643562009274 KMSKS motif; other site 643562009275 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 643562009276 Putative regulatory, ligand-binding protein related to C-terminal domains of K+ channels [Inorganic ion transport and metabolism]; Region: COG0490 643562009277 TrkA-C domain; Region: TrkA_C; pfam02080 643562009278 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 643562009279 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 643562009280 Ion channel; Region: Ion_trans_2; pfam07885 643562009281 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 643562009282 TrkA-N domain; Region: TrkA_N; pfam02254 643562009283 TrkA-C domain; Region: TrkA_C; pfam02080 643562009284 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 643562009285 TrkA-N domain; Region: TrkA_N; pfam02254 643562009286 TrkA-C domain; Region: TrkA_C; pfam02080 643562009287 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 643562009288 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; cl17186 643562009289 phosphate binding site [ion binding]; other site 643562009290 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 643562009291 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 643562009292 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 643562009293 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 643562009294 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 643562009295 Restriction endonuclease [Defense mechanisms]; Region: Mrr; COG1715 643562009296 Mrr N-terminal domain; Region: Mrr_N; pfam14338 643562009297 Restriction endonuclease; Region: Mrr_cat; pfam04471 643562009298 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 643562009299 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 643562009300 Family description; Region: VCBS; pfam13517 643562009301 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 643562009302 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 643562009303 DctM-like transporters; Region: DctM; pfam06808 643562009304 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 643562009305 Dicarboxylate transport; Region: DctA-YdbH; cl14674 643562009306 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 643562009307 Protein of unknown function (DUF1318); Region: DUF1318; cl01547 643562009308 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 643562009309 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 643562009310 RNA binding surface [nucleotide binding]; other site 643562009311 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 643562009312 active site 643562009313 BON domain; Region: BON; pfam04972 643562009314 BON domain; Region: BON; cl02771 643562009315 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 643562009316 NlpC/P60 family; Region: NLPC_P60; pfam00877 643562009317 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 643562009318 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 643562009319 ring oligomerisation interface [polypeptide binding]; other site 643562009320 ATP/Mg binding site [chemical binding]; other site 643562009321 stacking interactions; other site 643562009322 hinge regions; other site 643562009323 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 643562009324 oligomerisation interface [polypeptide binding]; other site 643562009325 mobile loop; other site 643562009326 roof hairpin; other site 643562009327 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 643562009328 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 643562009329 active site 643562009330 homotetramer interface [polypeptide binding]; other site 643562009331 PAS fold; Region: PAS; pfam00989 643562009332 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 643562009333 putative active site [active] 643562009334 heme pocket [chemical binding]; other site 643562009335 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643562009336 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643562009337 metal binding site [ion binding]; metal-binding site 643562009338 active site 643562009339 I-site; other site 643562009340 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 643562009341 dimerization interface [polypeptide binding]; other site 643562009342 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 643562009343 dimer interface [polypeptide binding]; other site 643562009344 phosphorylation site [posttranslational modification] 643562009345 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 643562009346 ATP binding site [chemical binding]; other site 643562009347 Mg2+ binding site [ion binding]; other site 643562009348 G-X-G motif; other site 643562009349 Response regulator receiver domain; Region: Response_reg; pfam00072 643562009350 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 643562009351 active site 643562009352 phosphorylation site [posttranslational modification] 643562009353 intermolecular recognition site; other site 643562009354 dimerization interface [polypeptide binding]; other site 643562009355 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 643562009356 Serine hydrolase; Region: Ser_hydrolase; cl17834 643562009357 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 643562009358 active site residue [active] 643562009359 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 643562009360 active site residue [active] 643562009361 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; cl17432 643562009362 NMT1/THI5 like; Region: NMT1; pfam09084 643562009363 Cache domain; Region: Cache_1; pfam02743 643562009364 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 643562009365 dimerization interface [polypeptide binding]; other site 643562009366 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 643562009367 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 643562009368 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 643562009369 anti sigma factor interaction site; other site 643562009370 regulatory phosphorylation site [posttranslational modification]; other site 643562009371 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 643562009372 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 643562009373 Fructose/tagarose-bisphosphate aldolase class II. This family includes fructose-1,6-bisphosphate (FBP) and tagarose 1,6-bisphosphate (TBP) aldolases. FBP-aldolase is homodimeric and used in gluconeogenesis and glycolysis; the enzyme controls the...; Region: FTBP_aldolase_II; cl17181 643562009374 active site 643562009375 zinc binding site [ion binding]; other site 643562009376 Na+ binding site [ion binding]; other site 643562009377 GTP-binding protein YchF; Reviewed; Region: PRK09601 643562009378 YchF GTPase; Region: YchF; cd01900 643562009379 G1 box; other site 643562009380 GTP/Mg2+ binding site [chemical binding]; other site 643562009381 Switch I region; other site 643562009382 G2 box; other site 643562009383 Switch II region; other site 643562009384 G3 box; other site 643562009385 G4 box; other site 643562009386 G5 box; other site 643562009387 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 643562009388 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 643562009389 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 643562009390 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 643562009391 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 643562009392 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643562009393 dimer interface [polypeptide binding]; other site 643562009394 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 643562009395 putative CheW interface [polypeptide binding]; other site 643562009396 Right handed beta helix region; Region: Beta_helix; pfam13229 643562009397 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 643562009398 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 643562009399 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 643562009400 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 643562009401 active site 643562009402 phosphorylation site [posttranslational modification] 643562009403 intermolecular recognition site; other site 643562009404 dimerization interface [polypeptide binding]; other site 643562009405 Sialic acid synthase [Cell envelope biogenesis, outer membrane]; Region: SpsE; COG2089 643562009406 NeuB family; Region: NeuB; pfam03102 643562009407 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 643562009408 NeuB binding interface [polypeptide binding]; other site 643562009409 putative substrate binding site [chemical binding]; other site 643562009410 putative DNA binding site [nucleotide binding]; other site 643562009411 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 643562009412 putative Zn2+ binding site [ion binding]; other site 643562009413 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 643562009414 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06710 643562009415 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 643562009416 acyl-activating enzyme (AAE) consensus motif; other site 643562009417 putative AMP binding site [chemical binding]; other site 643562009418 putative active site [active] 643562009419 putative CoA binding site [chemical binding]; other site 643562009420 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 643562009421 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_12; cd06347 643562009422 putative ligand binding site [chemical binding]; other site 643562009423 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 643562009424 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 643562009425 TM-ABC transporter signature motif; other site 643562009426 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 643562009427 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 643562009428 TM-ABC transporter signature motif; other site 643562009429 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 643562009430 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 643562009431 Walker A/P-loop; other site 643562009432 ATP binding site [chemical binding]; other site 643562009433 Q-loop/lid; other site 643562009434 ABC transporter signature motif; other site 643562009435 Walker B; other site 643562009436 D-loop; other site 643562009437 H-loop/switch region; other site 643562009438 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 643562009439 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 643562009440 Walker A/P-loop; other site 643562009441 ATP binding site [chemical binding]; other site 643562009442 Q-loop/lid; other site 643562009443 ABC transporter signature motif; other site 643562009444 Walker B; other site 643562009445 D-loop; other site 643562009446 H-loop/switch region; other site 643562009447 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 643562009448 active site 643562009449 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 643562009450 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 643562009451 inhibitor-cofactor binding pocket; inhibition site 643562009452 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643562009453 catalytic residue [active] 643562009454 Uncharacterized membrane protein, required for N-linked glycosylation [General function prediction only]; Region: COG1287 643562009455 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 643562009456 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 643562009457 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 643562009458 catalytic triad [active] 643562009459 Dissimilatory sulfite reductase D (DsrD); Region: DsrD; pfam08679 643562009460 sulfite reductase, dissimilatory-type beta subunit; Region: dsrB; TIGR02066 643562009461 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 643562009462 sulfite reductase, dissimilatory-type alpha subunit; Region: dsrA; TIGR02064 643562009463 Flagellin N-methylase; Region: FliB; pfam03692 643562009464 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 643562009465 active site 643562009466 dimerization interface [polypeptide binding]; other site 643562009467 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 643562009468 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 643562009469 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 643562009470 dimer interface [polypeptide binding]; other site 643562009471 phosphorylation site [posttranslational modification] 643562009472 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 643562009473 ATP binding site [chemical binding]; other site 643562009474 Mg2+ binding site [ion binding]; other site 643562009475 G-X-G motif; other site 643562009476 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 643562009477 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 643562009478 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 643562009479 FeS/SAM binding site; other site 643562009480 TRAM domain; Region: TRAM; cl01282 643562009481 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 643562009482 Transposase; Region: DEDD_Tnp_IS110; pfam01548 643562009483 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 643562009484 seryl-tRNA synthetase; Provisional; Region: PRK05431 643562009485 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 643562009486 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...; Region: SerRS_core; cd00770 643562009487 dimer interface [polypeptide binding]; other site 643562009488 active site 643562009489 motif 1; other site 643562009490 motif 2; other site 643562009491 motif 3; other site 643562009492 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 643562009493 Malic enzyme, N-terminal domain; Region: malic; pfam00390 643562009494 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 643562009495 putative NAD(P) binding site [chemical binding]; other site 643562009496 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 643562009497 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 643562009498 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 643562009499 membrane-bound complex binding site; other site 643562009500 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 643562009501 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 643562009502 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 643562009503 active site 643562009504 DNA polymerase IV; Validated; Region: PRK02406 643562009505 DNA binding site [nucleotide binding] 643562009506 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 643562009507 Uncharacterized conserved protein [Function unknown]; Region: COG3334 643562009508 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 643562009509 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 643562009510 dimerization interface 3.5A [polypeptide binding]; other site 643562009511 active site 643562009512 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 643562009513 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 643562009514 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 643562009515 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 643562009516 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 643562009517 active site 643562009518 SAM binding site [chemical binding]; other site 643562009519 homodimer interface [polypeptide binding]; other site 643562009520 an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III; Region: DNA_pol_III_epsilon_like; cd06130 643562009521 active site 643562009522 catalytic site [active] 643562009523 substrate binding site [chemical binding]; other site 643562009524 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 643562009525 active site 643562009526 putative homodimer interface [polypeptide binding]; other site 643562009527 SAM binding site [chemical binding]; other site 643562009528 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 643562009529 precorrin-6Y C5,15-methyltransferase (decarboxylating), CbiT subunit; Region: CbiT; TIGR02469 643562009530 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 643562009531 active site 643562009532 intersubunit interactions; other site 643562009533 catalytic residue [active] 643562009534 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 643562009535 putative catalytic site [active] 643562009536 putative metal binding site [ion binding]; other site 643562009537 putative phosphate binding site [ion binding]; other site 643562009538 HI0933-like protein; Region: HI0933_like; pfam03486 643562009539 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 643562009540 cytidylate kinase; Provisional; Region: cmk; PRK00023 643562009541 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 643562009542 CMP-binding site; other site 643562009543 The sites determining sugar specificity; other site 643562009544 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 643562009545 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 643562009546 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643562009547 homodimer interface [polypeptide binding]; other site 643562009548 catalytic residue [active] 643562009549 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 643562009550 Ligand Binding Site [chemical binding]; other site 643562009551 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 643562009552 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 643562009553 Walker A/P-loop; other site 643562009554 ATP binding site [chemical binding]; other site 643562009555 Q-loop/lid; other site 643562009556 ABC transporter signature motif; other site 643562009557 Walker B; other site 643562009558 D-loop; other site 643562009559 H-loop/switch region; other site 643562009560 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 643562009561 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 643562009562 TM-ABC transporter signature motif; other site 643562009563 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 643562009564 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 643562009565 TM-ABC transporter signature motif; other site 643562009566 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 643562009567 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 643562009568 dimerization interface [polypeptide binding]; other site 643562009569 ligand binding site [chemical binding]; other site 643562009570 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 643562009571 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 643562009572 Walker A/P-loop; other site 643562009573 ATP binding site [chemical binding]; other site 643562009574 Q-loop/lid; other site 643562009575 ABC transporter signature motif; other site 643562009576 Walker B; other site 643562009577 D-loop; other site 643562009578 H-loop/switch region; other site 643562009579 glycine betaine transporter periplasmic subunit; Provisional; Region: proX; PRK11119 643562009580 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 643562009581 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643562009582 dimer interface [polypeptide binding]; other site 643562009583 conserved gate region; other site 643562009584 putative PBP binding loops; other site 643562009585 ABC-ATPase subunit interface; other site 643562009586 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 643562009587 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 643562009588 Walker A/P-loop; other site 643562009589 ATP binding site [chemical binding]; other site 643562009590 Q-loop/lid; other site 643562009591 ABC transporter signature motif; other site 643562009592 Walker B; other site 643562009593 D-loop; other site 643562009594 H-loop/switch region; other site 643562009595 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc2; cd04583 643562009596 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 643562009597 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 643562009598 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 643562009599 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 643562009600 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 643562009601 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 643562009602 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 643562009603 adenosine phosphosulphate reductase, alpha subunit; Region: aprA; TIGR02061 643562009604 adenosine phosphosulphate reductase, beta subunit; Region: aprB; TIGR02060 643562009605 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 643562009606 Adenosine-5'-phosphosulfate reductase beta subunit; Region: APS-reductase_C; pfam12139 643562009607 sulfate adenylyltransferase; Reviewed; Region: sat; PRK04149 643562009608 ATP-sulfurylase; Region: ATPS; cd00517 643562009609 active site 643562009610 HXXH motif; other site 643562009611 flexible loop; other site 643562009612 Chorismate mutase type II; Region: CM_2; smart00830 643562009613 This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats...; Region: EPT_RTPC-like; cl00288 643562009614 putative active site [active] 643562009615 aconitate hydratase; Validated; Region: PRK07229 643562009616 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 643562009617 substrate binding site [chemical binding]; other site 643562009618 ligand binding site [chemical binding]; other site 643562009619 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 643562009620 substrate binding site [chemical binding]; other site 643562009621 SurA N-terminal domain; Region: SurA_N_3; cl07813 643562009622 periplasmic folding chaperone; Provisional; Region: PRK10788 643562009623 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 643562009624 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 643562009625 DUF based on E. rectale Gene description (DUF3880); Region: DUF3880; pfam12996 643562009626 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 643562009627 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 643562009628 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 643562009629 putative active site [active] 643562009630 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 643562009631 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 643562009632 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 643562009633 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 643562009634 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 643562009635 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 643562009636 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 643562009637 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 643562009638 flagellin; Provisional; Region: PRK12804 643562009639 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 643562009640 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 643562009641 ribonuclease III; Reviewed; Region: rnc; PRK00102 643562009642 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 643562009643 dimerization interface [polypeptide binding]; other site 643562009644 active site 643562009645 metal binding site [ion binding]; metal-binding site 643562009646 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 643562009647 dsRNA binding site [nucleotide binding]; other site 643562009648 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 643562009649 CoA binding domain; Region: CoA_binding_2; pfam13380 643562009650 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 643562009651 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 643562009652 BioD-like N-terminal domain of phosphotransacetylase [General function prediction only]; Region: Pta; COG0857 643562009653 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 643562009654 DRTGG domain; Region: DRTGG; pfam07085 643562009655 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 643562009656 TAT (twin-arginine translocation) pathway signal sequence; Region: TAT_signal; pfam10518 643562009657 Peptidase family M48; Region: Peptidase_M48; cl12018 643562009658 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 643562009659 binding surface 643562009660 TPR motif; other site 643562009661 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 643562009662 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 643562009663 catalytic triad [active] 643562009664 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 643562009665 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 643562009666 tandem repeat interface [polypeptide binding]; other site 643562009667 oligomer interface [polypeptide binding]; other site 643562009668 active site residues [active] 643562009669 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 643562009670 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...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 643562009671 RNA binding site [nucleotide binding]; other site 643562009672 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...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 643562009673 RNA binding site [nucleotide binding]; other site 643562009674 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...; Region: S1_RPS1_repeat_ec3; cd05688 643562009675 RNA binding site [nucleotide binding]; other site 643562009676 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 643562009677 RNA binding site [nucleotide binding]; other site 643562009678 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 643562009679 RNA binding site [nucleotide binding]; other site 643562009680 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 643562009681 RNA binding site [nucleotide binding]; other site 643562009682 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 643562009683 PhoU domain; Region: PhoU; pfam01895 643562009684 PhoU domain; Region: PhoU; pfam01895 643562009685 phosphate transporter ATP-binding protein; Provisional; Region: PRK14242 643562009686 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 643562009687 Walker A/P-loop; other site 643562009688 ATP binding site [chemical binding]; other site 643562009689 Q-loop/lid; other site 643562009690 ABC transporter signature motif; other site 643562009691 Walker B; other site 643562009692 D-loop; other site 643562009693 H-loop/switch region; other site 643562009694 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 643562009695 Hpt domain; Region: Hpt; pfam01627 643562009696 putative binding surface; other site 643562009697 active site 643562009698 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; pfam03306 643562009699 CheD chemotactic sensory transduction; Region: CheD; cl00810 643562009700 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 643562009701 Major Facilitator Superfamily; Region: MFS_1; pfam07690 643562009702 Protein of unknown function (DUF523); Region: DUF523; pfam04463 643562009703 Protein of unknown function DUF45; Region: DUF45; pfam01863 643562009704 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 643562009705 Methyltransferase domain; Region: Methyltransf_23; pfam13489 643562009706 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 643562009707 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 643562009708 Zn2+ binding site [ion binding]; other site 643562009709 Mg2+ binding site [ion binding]; other site 643562009710 Domain of unknown function (DUF4180); Region: DUF4180; pfam13788 643562009711 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 643562009712 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 643562009713 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 643562009714 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 643562009715 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 643562009716 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 643562009717 active site 643562009718 phosphorylation site [posttranslational modification] 643562009719 intermolecular recognition site; other site 643562009720 dimerization interface [polypeptide binding]; other site 643562009721 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 643562009722 DNA binding site [nucleotide binding] 643562009723 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 643562009724 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 643562009725 inhibitor-cofactor binding pocket; inhibition site 643562009726 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643562009727 catalytic residue [active] 643562009728 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 643562009729 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 643562009730 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 643562009731 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 643562009732 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 643562009733 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 643562009734 active site 643562009735 HIGH motif; other site 643562009736 nucleotide binding site [chemical binding]; other site 643562009737 Flagellin N-methylase; Region: FliB; pfam03692 643562009738 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 643562009739 dimerization interface [polypeptide binding]; other site 643562009740 putative ATP binding site [chemical binding]; other site 643562009741 PAS domain; Region: PAS_9; pfam13426 643562009742 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 643562009743 putative active site [active] 643562009744 heme pocket [chemical binding]; other site 643562009745 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 643562009746 PAS domain; Region: PAS_9; pfam13426 643562009747 putative active site [active] 643562009748 heme pocket [chemical binding]; other site 643562009749 PAS domain; Region: PAS_9; pfam13426 643562009750 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 643562009751 putative active site [active] 643562009752 heme pocket [chemical binding]; other site 643562009753 PAS domain S-box; Region: sensory_box; TIGR00229 643562009754 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 643562009755 putative active site [active] 643562009756 heme pocket [chemical binding]; other site 643562009757 PAS domain S-box; Region: sensory_box; TIGR00229 643562009758 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 643562009759 putative active site [active] 643562009760 heme pocket [chemical binding]; other site 643562009761 PAS domain S-box; Region: sensory_box; TIGR00229 643562009762 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 643562009763 putative active site [active] 643562009764 heme pocket [chemical binding]; other site 643562009765 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 643562009766 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 643562009767 putative active site [active] 643562009768 heme pocket [chemical binding]; other site 643562009769 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 643562009770 putative active site [active] 643562009771 heme pocket [chemical binding]; other site 643562009772 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 643562009773 dimer interface [polypeptide binding]; other site 643562009774 phosphorylation site [posttranslational modification] 643562009775 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 643562009776 ATP binding site [chemical binding]; other site 643562009777 Mg2+ binding site [ion binding]; other site 643562009778 G-X-G motif; other site 643562009779 Response regulator receiver domain; Region: Response_reg; pfam00072 643562009780 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 643562009781 active site 643562009782 phosphorylation site [posttranslational modification] 643562009783 intermolecular recognition site; other site 643562009784 dimerization interface [polypeptide binding]; other site 643562009785 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 643562009786 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 643562009787 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 643562009788 Zn binding site [ion binding]; other site 643562009789 HDOD domain; Region: HDOD; pfam08668 643562009790 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; smart00471 643562009791 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 643562009792 EamA-like transporter family; Region: EamA; pfam00892 643562009793 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 643562009794 binding surface 643562009795 TPR repeat; Region: TPR_11; pfam13414 643562009796 TPR motif; other site 643562009797 TPR repeat; Region: TPR_11; pfam13414 643562009798 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 643562009799 binding surface 643562009800 TPR motif; other site 643562009801 TPR repeat; Region: TPR_11; pfam13414 643562009802 Tetratricopeptide repeat; Region: TPR_16; pfam13432 643562009803 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 643562009804 binding surface 643562009805 TPR motif; other site 643562009806 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 643562009807 TPR motif; other site 643562009808 binding surface 643562009809 TPR repeat; Region: TPR_11; pfam13414 643562009810 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 643562009811 binding surface 643562009812 TPR motif; other site 643562009813 Tetratricopeptide repeat; Region: TPR_16; pfam13432 643562009814 Methyltransferase domain; Region: Methyltransf_31; pfam13847 643562009815 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 643562009816 S-adenosylmethionine binding site [chemical binding]; other site 643562009817 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 643562009818 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 643562009819 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 643562009820 active site residue [active] 643562009821 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 643562009822 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 643562009823 Coenzyme A binding pocket [chemical binding]; other site 643562009824 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 643562009825 UbiA prenyltransferase family; Region: UbiA; pfam01040 643562009826 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3238 643562009827 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 643562009828 PHP domain; Region: PHP; pfam02811 643562009829 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 643562009830 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 643562009831 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 643562009832 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 643562009833 Transposase; Region: DEDD_Tnp_IS110; pfam01548 643562009834 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 643562009835 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08665 643562009836 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 643562009837 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 643562009838 active site 643562009839 dimer interface [polypeptide binding]; other site 643562009840 effector binding site; other site 643562009841 TSCPD domain; Region: TSCPD; pfam12637 643562009842 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 643562009843 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 643562009844 substrate binding pocket [chemical binding]; other site 643562009845 membrane-bound complex binding site; other site 643562009846 hinge residues; other site 643562009847 PAS domain S-box; Region: sensory_box; TIGR00229 643562009848 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 643562009849 putative active site [active] 643562009850 heme pocket [chemical binding]; other site 643562009851 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 643562009852 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 643562009853 putative active site [active] 643562009854 heme pocket [chemical binding]; other site 643562009855 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 643562009856 dimer interface [polypeptide binding]; other site 643562009857 phosphorylation site [posttranslational modification] 643562009858 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 643562009859 ATP binding site [chemical binding]; other site 643562009860 Mg2+ binding site [ion binding]; other site 643562009861 G-X-G motif; other site 643562009862 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 643562009863 Methyltransferase domain; Region: Methyltransf_11; pfam08241 643562009864 aspartate aminotransferase; Provisional; Region: PRK05764 643562009865 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 643562009866 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643562009867 homodimer interface [polypeptide binding]; other site 643562009868 catalytic residue [active] 643562009869 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 643562009870 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 643562009871 active site 643562009872 HIGH motif; other site 643562009873 dimer interface [polypeptide binding]; other site 643562009874 KMSKS motif; other site 643562009875 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 643562009876 RNA binding surface [nucleotide binding]; other site 643562009877 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 643562009878 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 643562009879 putative active site [active] 643562009880 metal binding site [ion binding]; metal-binding site 643562009881 homodimer binding site [polypeptide binding]; other site 643562009882 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 643562009883 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 643562009884 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 643562009885 phosphodiesterase; Provisional; Region: PRK12704 643562009886 periplasmic chaperone; Provisional; Region: PRK10780 643562009887 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 643562009888 Zn2+ binding site [ion binding]; other site 643562009889 Mg2+ binding site [ion binding]; other site 643562009890 Cell division protein ZapA; Region: ZapA; cl01146 643562009891 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14356 643562009892 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 643562009893 Substrate binding site; other site 643562009894 Mg++ binding site; other site 643562009895 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 643562009896 active site 643562009897 substrate binding site [chemical binding]; other site 643562009898 CoA binding site [chemical binding]; other site 643562009899 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13446 643562009900 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 643562009901 gamma subunit interface [polypeptide binding]; other site 643562009902 epsilon subunit interface [polypeptide binding]; other site 643562009903 LBP interface [polypeptide binding]; other site 643562009904 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 643562009905 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 643562009906 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 643562009907 alpha subunit interaction interface [polypeptide binding]; other site 643562009908 Walker A motif; other site 643562009909 ATP binding site [chemical binding]; other site 643562009910 Walker B motif; other site 643562009911 inhibitor binding site; inhibition site 643562009912 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 643562009913 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 643562009914 core domain interface [polypeptide binding]; other site 643562009915 delta subunit interface [polypeptide binding]; other site 643562009916 epsilon subunit interface [polypeptide binding]; other site 643562009917 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 643562009918 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 643562009919 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 643562009920 beta subunit interaction interface [polypeptide binding]; other site 643562009921 Walker A motif; other site 643562009922 ATP binding site [chemical binding]; other site 643562009923 Walker B motif; other site 643562009924 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 643562009925 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13429 643562009926 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 643562009927 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 643562009928 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 643562009929 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 643562009930 ATP synthase B/B' CF(0); Region: ATP-synt_B; pfam00430 643562009931 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 643562009932 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 643562009933 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 643562009934 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 643562009935 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 643562009936 rod shape-determining protein MreC; Provisional; Region: PRK13922 643562009937 rod shape-determining protein MreC; Region: MreC; pfam04085 643562009938 rod shape-determining protein MreB; Provisional; Region: PRK13927 643562009939 MreB and similar proteins; Region: MreB_like; cd10225 643562009940 nucleotide binding site [chemical binding]; other site 643562009941 Mg binding site [ion binding]; other site 643562009942 putative protofilament interaction site [polypeptide binding]; other site 643562009943 RodZ interaction site [polypeptide binding]; other site 643562009944 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 643562009945 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 643562009946 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 643562009947 DNA binding site [nucleotide binding] 643562009948 active site 643562009949 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 643562009950 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 643562009951 CoA binding domain; Region: CoA_binding; pfam02629 643562009952 ATP synthase subunit C; Region: ATP-synt_C; cl00466 643562009953 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 643562009954 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 643562009955 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 643562009956 zinc-ribbon domain; Region: zinc_ribbon_4; pfam13717 643562009957 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 643562009958 active site 643562009959 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 643562009960 Coenzyme A binding pocket [chemical binding]; other site 643562009961 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 643562009962 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 643562009963 catalytic residues [active] 643562009964 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 643562009965 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 643562009966 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 643562009967 substrate binding pocket [chemical binding]; other site 643562009968 dimer interface [polypeptide binding]; other site 643562009969 inhibitor binding site; inhibition site 643562009970 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 643562009971 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 643562009972 B12 binding site [chemical binding]; other site 643562009973 cobalt ligand [ion binding]; other site 643562009974 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 643562009975 alternative sigma factor RpoH; Region: rpoH_proteo; TIGR02392 643562009976 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 643562009977 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 643562009978 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 643562009979 DNA binding residues [nucleotide binding] 643562009980 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 643562009981 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 643562009982 TPR motif; other site 643562009983 binding surface 643562009984 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 643562009985 binding surface 643562009986 TPR motif; other site 643562009987 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 643562009988 binding surface 643562009989 TPR motif; other site 643562009990 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 643562009991 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 643562009992 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 643562009993 TPP-binding site [chemical binding]; other site 643562009994 dimer interface [polypeptide binding]; other site 643562009995 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 643562009996 PYR/PP interface [polypeptide binding]; other site 643562009997 dimer interface [polypeptide binding]; other site 643562009998 TPP binding site [chemical binding]; other site 643562009999 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 643562010000 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 643562010001 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 643562010002 putative active site [active] 643562010003 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 643562010004 S-adenosylmethionine binding site [chemical binding]; other site 643562010005 Sulfatase; Region: Sulfatase; cl17466 643562010006 PilZ domain; Region: PilZ; cl01260 643562010007 NusB family; Region: NusB; pfam01029 643562010008 putative RNA binding site [nucleotide binding]; other site 643562010009 16S rRNA methyltransferase B; Provisional; Region: PRK14901 643562010010 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 643562010011 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 643562010012 metal-binding site [ion binding] 643562010013 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 643562010014 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 643562010015 metal-binding site [ion binding] 643562010016 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 643562010017 Soluble P-type ATPase [General function prediction only]; Region: COG4087 643562010018 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...; Region: APSK; cd02027 643562010019 ligand-binding site [chemical binding]; other site 643562010020 helicase/secretion neighborhood putative DEAH-box helicase; Region: DECH_helic; TIGR03817 643562010021 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 643562010022 ATP binding site [chemical binding]; other site 643562010023 putative Mg++ binding site [ion binding]; other site 643562010024 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 643562010025 nucleotide binding region [chemical binding]; other site 643562010026 ATP-binding site [chemical binding]; other site 643562010027 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 643562010028 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 643562010029 Response regulator receiver domain; Region: Response_reg; pfam00072 643562010030 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 643562010031 active site 643562010032 phosphorylation site [posttranslational modification] 643562010033 intermolecular recognition site; other site 643562010034 dimerization interface [polypeptide binding]; other site 643562010035 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 643562010036 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 643562010037 active site 643562010038 phosphorylation site [posttranslational modification] 643562010039 intermolecular recognition site; other site 643562010040 dimerization interface [polypeptide binding]; other site 643562010041 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 643562010042 Zn2+ binding site [ion binding]; other site 643562010043 Mg2+ binding site [ion binding]; other site 643562010044 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 643562010045 Domain of unknown function (DUF4276); Region: DUF4276; pfam14103 643562010046 Predicted ATPase [General function prediction only]; Region: COG4637 643562010047 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 643562010048 Walker A/P-loop; other site 643562010049 ATP binding site [chemical binding]; other site 643562010050 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 643562010051 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 643562010052 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 643562010053 active site 643562010054 phosphorylation site [posttranslational modification] 643562010055 intermolecular recognition site; other site 643562010056 dimerization interface [polypeptide binding]; other site 643562010057 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 643562010058 Walker A motif; other site 643562010059 ATP binding site [chemical binding]; other site 643562010060 Walker B motif; other site 643562010061 arginine finger; other site 643562010062 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 643562010063 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 643562010064 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 643562010065 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 643562010066 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 643562010067 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 643562010068 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 643562010069 SCP-2 sterol transfer family; Region: SCP2; pfam02036 643562010070 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 643562010071 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 643562010072 dimer interface [polypeptide binding]; other site 643562010073 phosphorylation site [posttranslational modification] 643562010074 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 643562010075 ATP binding site [chemical binding]; other site 643562010076 Mg2+ binding site [ion binding]; other site 643562010077 G-X-G motif; other site 643562010078 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 643562010079 B12 binding site [chemical binding]; other site 643562010080 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 643562010081 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 643562010082 FeS/SAM binding site; other site 643562010083 Sporulation related domain; Region: SPOR; pfam05036 643562010084 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 643562010085 IHF - DNA interface [nucleotide binding]; other site 643562010086 IHF dimer interface [polypeptide binding]; other site 643562010087 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 643562010088 HIT family signature motif; other site 643562010089 catalytic residue [active] 643562010090 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 643562010091 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 643562010092 NAD(P) binding site [chemical binding]; other site 643562010093 homodimer interface [polypeptide binding]; other site 643562010094 substrate binding site [chemical binding]; other site 643562010095 active site 643562010096 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 643562010097 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 643562010098 inhibitor-cofactor binding pocket; inhibition site 643562010099 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643562010100 catalytic residue [active] 643562010101 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 643562010102 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 643562010103 putative trimer interface [polypeptide binding]; other site 643562010104 putative CoA binding site [chemical binding]; other site 643562010105 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 643562010106 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 643562010107 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 643562010108 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 643562010109 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 643562010110 shikimate binding site; other site 643562010111 NAD(P) binding site [chemical binding]; other site 643562010112 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 643562010113 active site 643562010114 HDOD domain; Region: HDOD; pfam08668 643562010115 CheD chemotactic sensory transduction; Region: CheD; cl00810 643562010116 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 643562010117 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 643562010118 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 643562010119 Walker A/P-loop; other site 643562010120 ATP binding site [chemical binding]; other site 643562010121 Q-loop/lid; other site 643562010122 ABC transporter signature motif; other site 643562010123 Walker B; other site 643562010124 D-loop; other site 643562010125 H-loop/switch region; other site 643562010126 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 643562010127 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 643562010128 active site 643562010129 metal binding site [ion binding]; metal-binding site 643562010130 Tetratricopeptide repeat; Region: TPR_6; pfam13174 643562010131 AMIN domain; Region: AMIN; pfam11741 643562010132 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 643562010133 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 643562010134 active site 643562010135 metal binding site [ion binding]; metal-binding site 643562010136 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 643562010137 FAD binding site [chemical binding]; other site 643562010138 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 643562010139 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 643562010140 active site 643562010141 metal binding site [ion binding]; metal-binding site 643562010142 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 643562010143 thiosulfate reductase PhsA; Provisional; Region: PRK15488 643562010144 The MopB_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_Thiosulfate-R-like; cd02755 643562010145 putative [Fe4-S4] binding site [ion binding]; other site 643562010146 putative molybdopterin cofactor binding site [chemical binding]; other site 643562010147 The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_CT_Thiosulfate-R-like; cd02778 643562010148 putative molybdopterin cofactor binding site; other site 643562010149 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 643562010150 4Fe-4S binding domain; Region: Fer4; pfam00037 643562010151 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 643562010152 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 643562010153 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 643562010154 active site residue [active] 643562010155 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 643562010156 active site residue [active] 643562010157 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 643562010158 active site residue [active] 643562010159 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 643562010160 active site residue [active] 643562010161 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 643562010162 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 643562010163 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 643562010164 putative homodimer interface [polypeptide binding]; other site 643562010165 putative homotetramer interface [polypeptide binding]; other site 643562010166 putative allosteric switch controlling residues; other site 643562010167 putative metal binding site [ion binding]; other site 643562010168 putative homodimer-homodimer interface [polypeptide binding]; other site 643562010169 GTPase Era; Reviewed; Region: era; PRK00089 643562010170 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 643562010171 G1 box; other site 643562010172 GTP/Mg2+ binding site [chemical binding]; other site 643562010173 Switch I region; other site 643562010174 G2 box; other site 643562010175 Switch II region; other site 643562010176 G3 box; other site 643562010177 G4 box; other site 643562010178 G5 box; other site 643562010179 KH domain; Region: KH_2; pfam07650 643562010180 Peptidase S8 family domain in Protein convertases; Region: Peptidases_S8_Protein_convertases_Kexins_Furin-lik; cd04059 643562010181 calcium binding site 1 [ion binding]; other site 643562010182 type VII secretion-associated serine protease mycosin; Region: T7SS_mycosin; TIGR03921 643562010183 active site 643562010184 catalytic triad [active] 643562010185 calcium binding site 2 [ion binding]; other site 643562010186 calcium binding site 3 [ion binding]; other site 643562010187 Regulatory P domain of the subtilisin-like proprotein convertases and other proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG4935 643562010188 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 643562010189 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 643562010190 Peptidase family U32; Region: Peptidase_U32; pfam01136 643562010191 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 643562010192 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 643562010193 putative dimer interface [polypeptide binding]; other site 643562010194 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 643562010195 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 643562010196 putative dimer interface [polypeptide binding]; other site 643562010197 Uncharacterized conserved protein [Function unknown]; Region: COG2835 643562010198 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 643562010199 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 643562010200 active site 643562010201 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 643562010202 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 643562010203 Predicted HD phosphohydrolase [General function prediction only]; Region: COG4341; cl17564 643562010204 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 643562010205 Zn2+ binding site [ion binding]; other site 643562010206 Mg2+ binding site [ion binding]; other site 643562010207 dihydroorotase; Validated; Region: pyrC; PRK09357 643562010208 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 643562010209 active site 643562010210 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 643562010211 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 643562010212 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 643562010213 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 643562010214 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 643562010215 active site 643562010216 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 643562010217 metal-binding site [ion binding] 643562010218 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 643562010219 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 643562010220 active site 643562010221 phosphorylation site [posttranslational modification] 643562010222 intermolecular recognition site; other site 643562010223 dimerization interface [polypeptide binding]; other site 643562010224 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 643562010225 DNA binding residues [nucleotide binding] 643562010226 dimerization interface [polypeptide binding]; other site 643562010227 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 643562010228 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 643562010229 putative active site [active] 643562010230 heme pocket [chemical binding]; other site 643562010231 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 643562010232 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 643562010233 putative active site [active] 643562010234 heme pocket [chemical binding]; other site 643562010235 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 643562010236 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 643562010237 putative active site [active] 643562010238 heme pocket [chemical binding]; other site 643562010239 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 643562010240 putative active site [active] 643562010241 heme pocket [chemical binding]; other site 643562010242 PAS domain S-box; Region: sensory_box; TIGR00229 643562010243 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 643562010244 putative active site [active] 643562010245 heme pocket [chemical binding]; other site 643562010246 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 643562010247 Histidine kinase; Region: HisKA_3; pfam07730 643562010248 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 643562010249 ATP binding site [chemical binding]; other site 643562010250 Mg2+ binding site [ion binding]; other site 643562010251 G-X-G motif; other site 643562010252 FOG: CBS domain [General function prediction only]; Region: COG0517 643562010253 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 643562010254 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 643562010255 Response regulator receiver domain; Region: Response_reg; pfam00072 643562010256 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 643562010257 active site 643562010258 phosphorylation site [posttranslational modification] 643562010259 intermolecular recognition site; other site 643562010260 dimerization interface [polypeptide binding]; other site 643562010261 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 643562010262 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 643562010263 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 643562010264 active site 643562010265 catalytic residues [active] 643562010266 DNA binding site [nucleotide binding] 643562010267 Int/Topo IB signature motif; other site 643562010268 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 643562010269 Protein of unknown function, DUF399; Region: DUF399; pfam04187 643562010270 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 643562010271 Protein of unknown function (DUF429); Region: DUF429; cl12046 643562010272 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 643562010273 Transposase; Region: DEDD_Tnp_IS110; pfam01548 643562010274 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 643562010275 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 643562010276 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 643562010277 acyl-activating enzyme (AAE) consensus motif; other site 643562010278 active site 643562010279 AMP binding site [chemical binding]; other site 643562010280 CoA binding site [chemical binding]; other site 643562010281 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 643562010282 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 643562010283 active site 643562010284 catalytic residues [active] 643562010285 DNA binding site [nucleotide binding] 643562010286 Int/Topo IB signature motif; other site 643562010287 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 643562010288 HTH-like domain; Region: HTH_21; pfam13276 643562010289 Integrase core domain; Region: rve; pfam00665 643562010290 Integrase core domain; Region: rve_3; pfam13683 643562010291 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 643562010292 DNA-binding interface [nucleotide binding]; DNA binding site 643562010293 HsdM N-terminal domain; Region: HsdM_N; pfam12161 643562010294 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 643562010295 PAS domain S-box; Region: sensory_box; TIGR00229 643562010296 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 643562010297 putative active site [active] 643562010298 heme pocket [chemical binding]; other site 643562010299 PAS domain S-box; Region: sensory_box; TIGR00229 643562010300 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 643562010301 putative active site [active] 643562010302 heme pocket [chemical binding]; other site 643562010303 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 643562010304 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 643562010305 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 643562010306 anti sigma factor interaction site; other site 643562010307 regulatory phosphorylation site [posttranslational modification]; other site 643562010308 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 643562010309 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 643562010310 ATP binding site [chemical binding]; other site 643562010311 Mg2+ binding site [ion binding]; other site 643562010312 G-X-G motif; other site 643562010313 PilZ domain; Region: PilZ; pfam07238 643562010314 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; pfam02156 643562010315 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 643562010316 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 643562010317 DXD motif; other site 643562010318 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 643562010319 TPR motif; other site 643562010320 binding surface 643562010321 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 643562010322 TPR motif; other site 643562010323 binding surface 643562010324 TPR repeat; Region: TPR_11; pfam13414 643562010325 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 643562010326 binding surface 643562010327 TPR motif; other site 643562010328 TPR repeat; Region: TPR_11; pfam13414 643562010329 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 643562010330 binding surface 643562010331 TPR motif; other site 643562010332 Tetratricopeptide repeat; Region: TPR_16; pfam13432 643562010333 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 643562010334 binding surface 643562010335 TPR motif; other site 643562010336 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 643562010337 nitrate transport ATP-binding subunits C and D; Region: ntrCD; TIGR01184 643562010338 Walker A/P-loop; other site 643562010339 ATP binding site [chemical binding]; other site 643562010340 Q-loop/lid; other site 643562010341 ABC transporter signature motif; other site 643562010342 Walker B; other site 643562010343 D-loop; other site 643562010344 H-loop/switch region; other site 643562010345 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 643562010346 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643562010347 ABC-ATPase subunit interface; other site 643562010348 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 643562010349 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643562010350 dimer interface [polypeptide binding]; other site 643562010351 conserved gate region; other site 643562010352 putative PBP binding loops; other site 643562010353 ABC-ATPase subunit interface; other site 643562010354 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 643562010355 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 643562010356 substrate binding pocket [chemical binding]; other site 643562010357 membrane-bound complex binding site; other site 643562010358 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 643562010359 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 643562010360 acyl-activating enzyme (AAE) consensus motif; other site 643562010361 AMP binding site [chemical binding]; other site 643562010362 active site 643562010363 CoA binding site [chemical binding]; other site 643562010364 Phosphopantetheine attachment site; Region: PP-binding; cl09936 643562010365 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 643562010366 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 643562010367 TrkA-N domain; Region: TrkA_N; pfam02254 643562010368 Protein of unknown function (DUF3124); Region: DUF3124; pfam11322 643562010369 Ion channel; Region: Ion_trans_2; pfam07885 643562010370 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 643562010371 TrkA-N domain; Region: TrkA_N; pfam02254 643562010372 TrkA-C domain; Region: TrkA_C; pfam02080 643562010373 Predicted transporter component [General function prediction only]; Region: COG2391 643562010374 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 643562010375 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 643562010376 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 643562010377 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 643562010378 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 643562010379 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 643562010380 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 643562010381 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_4; cd13144 643562010382 putative efflux protein, MATE family; Region: matE; TIGR00797 643562010383 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 643562010384 SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response...; Region: SirA_like_N; cd03421 643562010385 CPxP motif; other site 643562010386 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 643562010387 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 643562010388 ATP binding site [chemical binding]; other site 643562010389 substrate binding site [chemical binding]; other site 643562010390 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 643562010391 Cytochrome c552; Region: Cytochrom_C552; pfam02335 643562010392 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 643562010393 cytochrome c nitrate reductase, small subunit; Region: cytochr_NrfH; TIGR03153 643562010394 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 643562010395 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 643562010396 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 643562010397 Protein export membrane protein; Region: SecD_SecF; cl14618 643562010398 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 643562010399 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 643562010400 HlyD family secretion protein; Region: HlyD_3; pfam13437 643562010401 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 643562010402 MG2 domain; Region: A2M_N; pfam01835 643562010403 Alpha-2-macroglobulin family; Region: A2M; pfam00207 643562010404 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 643562010405 surface patch; other site 643562010406 thioester region; other site 643562010407 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 643562010408 Transglycosylase; Region: Transgly; pfam00912 643562010409 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 643562010410 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 643562010411 GAF domain; Region: GAF_3; pfam13492 643562010412 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643562010413 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643562010414 metal binding site [ion binding]; metal-binding site 643562010415 active site 643562010416 I-site; other site 643562010417 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 643562010418 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 643562010419 4Fe-4S binding domain; Region: Fer4; cl02805 643562010420 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 643562010421 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 643562010422 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; smart00790 643562010423 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 643562010424 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 643562010425 Methyltransferase domain; Region: Methyltransf_23; pfam13489 643562010426 Methyltransferase domain; Region: Methyltransf_12; pfam08242 643562010427 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 643562010428 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 643562010429 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 643562010430 CDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: CDP_GD_SDR_e; cd05252 643562010431 NAD binding site [chemical binding]; other site 643562010432 homotetramer interface [polypeptide binding]; other site 643562010433 homodimer interface [polypeptide binding]; other site 643562010434 substrate binding site [chemical binding]; other site 643562010435 active site 643562010436 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 643562010437 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 643562010438 substrate binding site; other site 643562010439 Cephalosporin hydroxylase; Region: CmcI; pfam04989 643562010440 Methyltransferase domain; Region: Methyltransf_23; pfam13489 643562010441 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 643562010442 S-adenosylmethionine binding site [chemical binding]; other site 643562010443 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 643562010444 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 643562010445 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 643562010446 NAD(P) binding site [chemical binding]; other site 643562010447 active site 643562010448 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 643562010449 active site 643562010450 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 643562010451 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 643562010452 Transposase [DNA replication, recombination, and repair]; Region: COG5433 643562010453 Transposase [DNA replication, recombination, and repair]; Region: COG5433 643562010454 NAD synthetase; Provisional; Region: PRK13981 643562010455 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 643562010456 multimer interface [polypeptide binding]; other site 643562010457 active site 643562010458 catalytic triad [active] 643562010459 protein interface 1 [polypeptide binding]; other site 643562010460 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 643562010461 homodimer interface [polypeptide binding]; other site 643562010462 NAD binding pocket [chemical binding]; other site 643562010463 ATP binding pocket [chemical binding]; other site 643562010464 Mg binding site [ion binding]; other site 643562010465 active-site loop [active] 643562010466 Protein of unknown function DUF115; Region: MAF_flag10; cl17471 643562010467 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 643562010468 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 643562010469 peroxiredoxin; Region: AhpC; TIGR03137 643562010470 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 643562010471 dimer interface [polypeptide binding]; other site 643562010472 decamer (pentamer of dimers) interface [polypeptide binding]; other site 643562010473 catalytic triad [active] 643562010474 peroxidatic and resolving cysteines [active] 643562010475 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 643562010476 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 643562010477 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 643562010478 Peptidase M16C associated; Region: M16C_assoc; pfam08367 643562010479 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 643562010480 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 643562010481 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 643562010482 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 643562010483 Ligand Binding Site [chemical binding]; other site 643562010484 Bacterial sugar transferase; Region: Bac_transf; pfam02397 643562010485 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 643562010486 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 643562010487 putative ADP-binding pocket [chemical binding]; other site 643562010488 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 643562010489 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 643562010490 Cache domain; Region: Cache_1; pfam02743 643562010491 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 643562010492 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 643562010493 dimerization interface [polypeptide binding]; other site 643562010494 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643562010495 dimer interface [polypeptide binding]; other site 643562010496 putative CheW interface [polypeptide binding]; other site 643562010497 Mechanosensitive ion channel; Region: MS_channel; pfam00924 643562010498 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 643562010499 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 643562010500 active site 643562010501 motif I; other site 643562010502 motif II; other site 643562010503 endonuclease IV; Provisional; Region: PRK01060 643562010504 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; cd00019 643562010505 AP (apurinic/apyrimidinic) site pocket; other site 643562010506 DNA interaction; other site 643562010507 Metal-binding active site; metal-binding site 643562010508 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 643562010509 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 643562010510 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 643562010511 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 643562010512 Mor transcription activator family; Region: Mor; cl02360 643562010513 Methyltransferase domain; Region: Methyltransf_31; pfam13847 643562010514 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 643562010515 S-adenosylmethionine binding site [chemical binding]; other site 643562010516 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 643562010517 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 643562010518 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 643562010519 Walker A motif; other site 643562010520 ATP binding site [chemical binding]; other site 643562010521 Walker B motif; other site 643562010522 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 643562010523 Predicted membrane protein [Function unknown]; Region: COG5373 643562010524 Protein of unknown function (DUF3568); Region: DUF3568; pfam12092 643562010525 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 643562010526 DNA binding residues [nucleotide binding] 643562010527 Transcriptional regulator [Transcription]; Region: LysR; COG0583 643562010528 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643562010529 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 643562010530 dimerization interface [polypeptide binding]; other site 643562010531 Rubrerythrin [Energy production and conversion]; Region: COG1592 643562010532 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 643562010533 binuclear metal center [ion binding]; other site 643562010534 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cl00202 643562010535 iron binding site [ion binding]; other site 643562010536 Transcriptional regulator [Transcription]; Region: LysR; COG0583 643562010537 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643562010538 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 643562010539 dimerization interface [polypeptide binding]; other site 643562010540 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 643562010541 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 643562010542 active site 643562010543 dimer interface [polypeptide binding]; other site 643562010544 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 643562010545 Ligand Binding Site [chemical binding]; other site 643562010546 Molecular Tunnel; other site 643562010547 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 643562010548 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 643562010549 active site 643562010550 catalytic residues [active] 643562010551 Int/Topo IB signature motif; other site 643562010552 DNA binding site [nucleotide binding] 643562010553 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 643562010554 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 643562010555 active site 643562010556 catalytic residues [active] 643562010557 DNA binding site [nucleotide binding] 643562010558 Int/Topo IB signature motif; other site 643562010559 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 643562010560 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; cl00470 643562010561 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 643562010562 catalytic core [active] 643562010563 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 643562010564 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 643562010565 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 643562010566 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 643562010567 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 643562010568 dimer interface [polypeptide binding]; other site 643562010569 phosphorylation site [posttranslational modification] 643562010570 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 643562010571 ATP binding site [chemical binding]; other site 643562010572 G-X-G motif; other site 643562010573 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 643562010574 TPR motif; other site 643562010575 binding surface 643562010576 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 643562010577 binding surface 643562010578 TPR motif; other site 643562010579 DNA gyrase subunit A; Validated; Region: PRK05560 643562010580 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...; Region: TOP4c; cd00187 643562010581 CAP-like domain; other site 643562010582 active site 643562010583 primary dimer interface [polypeptide binding]; other site 643562010584 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 643562010585 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 643562010586 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 643562010587 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 643562010588 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 643562010589 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 643562010590 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 643562010591 ATP binding site [chemical binding]; other site 643562010592 Mg2+ binding site [ion binding]; other site 643562010593 G-X-G motif; other site 643562010594 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 643562010595 anchoring element; other site 643562010596 dimer interface [polypeptide binding]; other site 643562010597 ATP binding site [chemical binding]; other site 643562010598 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 643562010599 active site 643562010600 putative metal-binding site [ion binding]; other site 643562010601 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 643562010602 DNA polymerase III subunit beta; Provisional; Region: PRK14947 643562010603 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 643562010604 putative DNA binding surface [nucleotide binding]; other site 643562010605 dimer interface [polypeptide binding]; other site 643562010606 beta-clamp/clamp loader binding surface; other site 643562010607 beta-clamp/translesion DNA polymerase binding surface; other site 643562010608 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 643562010609 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 643562010610 Walker A motif; other site 643562010611 ATP binding site [chemical binding]; other site 643562010612 Walker B motif; other site 643562010613 arginine finger; other site 643562010614 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 643562010615 DnaA box-binding interface [nucleotide binding]; other site 643562010616 Domain of unknown function DUF39; Region: DUF39; pfam01837 643562010617 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 643562010618 homodimer interface [polypeptide binding]; other site 643562010619 substrate-cofactor binding pocket; other site 643562010620 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643562010621 Aminotransferase class IV; Region: Aminotran_4; pfam01063 643562010622 catalytic residue [active] 643562010623 aminodeoxychorismate synthase, component I, clade 2; Region: PabB-clade2; TIGR01824 643562010624 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 643562010625 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 643562010626 Glutamine amidotransferase class-I; Region: GATase; pfam00117 643562010627 glutamine binding [chemical binding]; other site 643562010628 catalytic triad [active] 643562010629 AIR carboxylase; Region: AIRC; pfam00731 643562010630 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 643562010631 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 643562010632 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 643562010633 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 643562010634 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 643562010635 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 643562010636 DNA-binding interface [nucleotide binding]; DNA binding site 643562010637 HTH-like domain; Region: HTH_21; pfam13276 643562010638 Integrase core domain; Region: rve; pfam00665 643562010639 Integrase core domain; Region: rve_3; pfam13683 643562010640 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 643562010641 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 643562010642 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]; Region: PorB; COG1013 643562010643 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 643562010644 TPP-binding site [chemical binding]; other site 643562010645 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 643562010646 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 643562010647 dimer interface [polypeptide binding]; other site 643562010648 PYR/PP interface [polypeptide binding]; other site 643562010649 TPP binding site [chemical binding]; other site 643562010650 substrate binding site [chemical binding]; other site 643562010651 Ferredoxin [Energy production and conversion]; Region: COG1146 643562010652 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 643562010653 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 643562010654 Intra-flagellar transport protein 57; Region: IFT57; pfam10498 643562010655 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 643562010656 Flavoprotein; Region: Flavoprotein; pfam02441 643562010657 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 643562010658 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 643562010659 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 643562010660 active site 643562010661 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 643562010662 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 643562010663 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 643562010664 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 643562010665 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 643562010666 putative NAD(P) binding site [chemical binding]; other site 643562010667 active site 643562010668 putative substrate binding site [chemical binding]; other site