-- dump date 20140619_102554 -- class Genbank::misc_feature -- table misc_feature_note -- id note 351605000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 351605000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 351605000003 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 351605000004 Walker A motif; other site 351605000005 ATP binding site [chemical binding]; other site 351605000006 Walker B motif; other site 351605000007 arginine finger; other site 351605000008 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 351605000009 DnaA box-binding interface [nucleotide binding]; other site 351605000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 351605000011 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 351605000012 putative DNA binding surface [nucleotide binding]; other site 351605000013 dimer interface [polypeptide binding]; other site 351605000014 beta-clamp/clamp loader binding surface; other site 351605000015 beta-clamp/translesion DNA polymerase binding surface; other site 351605000016 recombination protein F; Reviewed; Region: recF; PRK00064 351605000017 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351605000018 Walker A/P-loop; other site 351605000019 ATP binding site [chemical binding]; other site 351605000020 Q-loop/lid; other site 351605000021 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351605000022 ABC transporter signature motif; other site 351605000023 Walker B; other site 351605000024 D-loop; other site 351605000025 H-loop/switch region; other site 351605000026 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 351605000027 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 351605000028 Mg2+ binding site [ion binding]; other site 351605000029 G-X-G motif; other site 351605000030 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 351605000031 anchoring element; other site 351605000032 dimer interface [polypeptide binding]; other site 351605000033 ATP binding site [chemical binding]; other site 351605000034 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 351605000035 active site 351605000036 putative metal-binding site [ion binding]; other site 351605000037 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 351605000038 DNA gyrase subunit A; Validated; Region: PRK05560 351605000039 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 351605000040 CAP-like domain; other site 351605000041 active site 351605000042 primary dimer interface [polypeptide binding]; other site 351605000043 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 351605000044 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 351605000045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 351605000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 351605000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 351605000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 351605000049 HEAT repeats; Region: HEAT_2; pfam13646 351605000050 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 351605000051 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 351605000052 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 351605000053 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 351605000054 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 351605000055 dimerization interface [polypeptide binding]; other site 351605000056 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 351605000057 putative active site [active] 351605000058 heme pocket [chemical binding]; other site 351605000059 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 351605000060 dimer interface [polypeptide binding]; other site 351605000061 phosphorylation site [posttranslational modification] 351605000062 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 351605000063 ATP binding site [chemical binding]; other site 351605000064 Mg2+ binding site [ion binding]; other site 351605000065 G-X-G motif; other site 351605000066 Response regulator receiver domain; Region: Response_reg; pfam00072 351605000067 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605000068 active site 351605000069 phosphorylation site [posttranslational modification] 351605000070 intermolecular recognition site; other site 351605000071 dimerization interface [polypeptide binding]; other site 351605000072 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 351605000073 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 351605000074 putative active site [active] 351605000075 heme pocket [chemical binding]; other site 351605000076 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 351605000077 dimer interface [polypeptide binding]; other site 351605000078 phosphorylation site [posttranslational modification] 351605000079 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 351605000080 ATP binding site [chemical binding]; other site 351605000081 Mg2+ binding site [ion binding]; other site 351605000082 G-X-G motif; other site 351605000083 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 351605000084 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 351605000085 putative active site [active] 351605000086 heme pocket [chemical binding]; other site 351605000087 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 351605000088 putative active site [active] 351605000089 heme pocket [chemical binding]; other site 351605000090 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 351605000091 dimer interface [polypeptide binding]; other site 351605000092 phosphorylation site [posttranslational modification] 351605000093 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 351605000094 ATP binding site [chemical binding]; other site 351605000095 Mg2+ binding site [ion binding]; other site 351605000096 G-X-G motif; other site 351605000097 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 351605000098 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605000099 active site 351605000100 phosphorylation site [posttranslational modification] 351605000101 intermolecular recognition site; other site 351605000102 dimerization interface [polypeptide binding]; other site 351605000103 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 351605000104 PAS domain; Region: PAS_9; pfam13426 351605000105 putative active site [active] 351605000106 heme pocket [chemical binding]; other site 351605000107 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 351605000108 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 351605000109 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 351605000110 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 351605000111 dimer interface [polypeptide binding]; other site 351605000112 phosphorylation site [posttranslational modification] 351605000113 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 351605000114 ATP binding site [chemical binding]; other site 351605000115 Mg2+ binding site [ion binding]; other site 351605000116 G-X-G motif; other site 351605000117 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351605000118 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 351605000119 Walker A/P-loop; other site 351605000120 ATP binding site [chemical binding]; other site 351605000121 Q-loop/lid; other site 351605000122 ABC transporter signature motif; other site 351605000123 Walker B; other site 351605000124 D-loop; other site 351605000125 H-loop/switch region; other site 351605000126 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 351605000127 ABC-2 type transporter; Region: ABC2_membrane; cl17235 351605000128 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 351605000129 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 351605000130 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 351605000131 FeS/SAM binding site; other site 351605000132 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 351605000133 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 351605000134 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 351605000135 substrate binding site [chemical binding]; other site 351605000136 active site 351605000137 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 351605000138 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 351605000139 5-histidylcysteine sulfoxide synthase; Region: ovoA_Nterm; TIGR04344 351605000140 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 351605000141 Methyltransferase domain; Region: Methyltransf_31; pfam13847 351605000142 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 351605000143 S-adenosylmethionine binding site [chemical binding]; other site 351605000144 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 351605000145 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 351605000146 putative NAD(P) binding site [chemical binding]; other site 351605000147 Predicted membrane protein (DUF2127); Region: DUF2127; pfam09900 351605000148 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 351605000149 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 351605000150 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 351605000151 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 351605000152 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 351605000153 dimerization interface [polypeptide binding]; other site 351605000154 domain crossover interface; other site 351605000155 redox-dependent activation switch; other site 351605000156 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 351605000157 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 351605000158 active site 351605000159 Peptidase family U32; Region: Peptidase_U32; pfam01136 351605000160 metal binding site [ion binding]; metal-binding site 351605000161 Collagenase; Region: DUF3656; pfam12392 351605000162 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 351605000163 ATP binding site [chemical binding]; other site 351605000164 Mg2+ binding site [ion binding]; other site 351605000165 G-X-G motif; other site 351605000166 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 351605000167 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 351605000168 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 351605000169 Peptidase M15; Region: Peptidase_M15_3; cl01194 351605000170 Predicted membrane protein [Function unknown]; Region: COG1238 351605000171 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 351605000172 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 351605000173 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 351605000174 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 351605000175 putative active site [active] 351605000176 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 351605000177 Precorrin-8X methylmutase; Region: CbiC; pfam02570 351605000178 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 351605000179 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 351605000180 active site 351605000181 putative homodimer interface [polypeptide binding]; other site 351605000182 SAM binding site [chemical binding]; other site 351605000183 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 351605000184 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 351605000185 S-adenosylmethionine binding site [chemical binding]; other site 351605000186 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 351605000187 active site 351605000188 SAM binding site [chemical binding]; other site 351605000189 homodimer interface [polypeptide binding]; other site 351605000190 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 351605000191 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 351605000192 oligomeric interface; other site 351605000193 putative active site [active] 351605000194 homodimer interface [polypeptide binding]; other site 351605000195 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 351605000196 active site 351605000197 SAM binding site [chemical binding]; other site 351605000198 homodimer interface [polypeptide binding]; other site 351605000199 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 351605000200 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 351605000201 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 351605000202 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 351605000203 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 351605000204 active site 351605000205 SAM binding site [chemical binding]; other site 351605000206 homodimer interface [polypeptide binding]; other site 351605000207 cobyric acid synthase; Provisional; Region: PRK00784 351605000208 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 351605000209 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 351605000210 catalytic triad [active] 351605000211 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 351605000212 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 351605000213 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 351605000214 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351605000215 homodimer interface [polypeptide binding]; other site 351605000216 catalytic residue [active] 351605000217 PilZ domain; Region: PilZ; pfam07238 351605000218 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 351605000219 metal binding site 2 [ion binding]; metal-binding site 351605000220 putative DNA binding helix; other site 351605000221 metal binding site 1 [ion binding]; metal-binding site 351605000222 dimer interface [polypeptide binding]; other site 351605000223 structural Zn2+ binding site [ion binding]; other site 351605000224 Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor...; Region: AdcA; cd01017 351605000225 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 351605000226 metal binding site [ion binding]; metal-binding site 351605000227 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 351605000228 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 351605000229 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 351605000230 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 351605000231 ABC-ATPase subunit interface; other site 351605000232 dimer interface [polypeptide binding]; other site 351605000233 putative PBP binding regions; other site 351605000234 Response regulator receiver domain; Region: Response_reg; pfam00072 351605000235 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605000236 active site 351605000237 phosphorylation site [posttranslational modification] 351605000238 intermolecular recognition site; other site 351605000239 dimerization interface [polypeptide binding]; other site 351605000240 Response regulator receiver domain; Region: Response_reg; pfam00072 351605000241 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605000242 active site 351605000243 phosphorylation site [posttranslational modification] 351605000244 intermolecular recognition site; other site 351605000245 dimerization interface [polypeptide binding]; other site 351605000246 PAS domain S-box; Region: sensory_box; TIGR00229 351605000247 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 351605000248 putative active site [active] 351605000249 heme pocket [chemical binding]; other site 351605000250 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351605000251 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351605000252 metal binding site [ion binding]; metal-binding site 351605000253 active site 351605000254 I-site; other site 351605000255 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 351605000256 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 351605000257 dimerization interface [polypeptide binding]; other site 351605000258 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 351605000259 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 351605000260 putative active site [active] 351605000261 heme pocket [chemical binding]; other site 351605000262 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 351605000263 dimer interface [polypeptide binding]; other site 351605000264 phosphorylation site [posttranslational modification] 351605000265 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 351605000266 ATP binding site [chemical binding]; other site 351605000267 Mg2+ binding site [ion binding]; other site 351605000268 G-X-G motif; other site 351605000269 PBP superfamily domain; Region: PBP_like_2; pfam12849 351605000270 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 351605000271 dimer interface [polypeptide binding]; other site 351605000272 phosphorylation site [posttranslational modification] 351605000273 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 351605000274 ATP binding site [chemical binding]; other site 351605000275 Mg2+ binding site [ion binding]; other site 351605000276 G-X-G motif; other site 351605000277 Response regulator receiver domain; Region: Response_reg; pfam00072 351605000278 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605000279 active site 351605000280 phosphorylation site [posttranslational modification] 351605000281 intermolecular recognition site; other site 351605000282 dimerization interface [polypeptide binding]; other site 351605000283 PAS domain S-box; Region: sensory_box; TIGR00229 351605000284 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 351605000285 putative active site [active] 351605000286 heme pocket [chemical binding]; other site 351605000287 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351605000288 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351605000289 metal binding site [ion binding]; metal-binding site 351605000290 active site 351605000291 I-site; other site 351605000292 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 351605000293 nucleoside/Zn binding site; other site 351605000294 dimer interface [polypeptide binding]; other site 351605000295 catalytic motif [active] 351605000296 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 351605000297 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 351605000298 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 351605000299 seryl-tRNA synthetase; Region: serS; TIGR00414 351605000300 putative transposase OrfB; Reviewed; Region: PHA02517 351605000301 Integrase core domain; Region: rve; pfam00665 351605000302 Integrase core domain; Region: rve_3; pfam13683 351605000303 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 351605000304 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 351605000305 Transposase; Region: DDE_Tnp_ISL3; pfam01610 351605000306 transposase; Validated; Region: PRK08181 351605000307 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 351605000308 Walker A motif; other site 351605000309 ATP binding site [chemical binding]; other site 351605000310 Walker B motif; other site 351605000311 Integrase core domain; Region: rve; pfam00665 351605000312 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 351605000313 Bacterial Ig-like domain (group 3); Region: Big_3_3; pfam13750 351605000314 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 351605000315 Bacterial Ig-like domain (group 3); Region: Big_3_3; pfam13750 351605000316 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 351605000317 Interdomain contacts; other site 351605000318 Cytokine receptor motif; other site 351605000319 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 351605000320 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 351605000321 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 351605000322 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 351605000323 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 351605000324 CARDB; Region: CARDB; pfam07705 351605000325 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 351605000326 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 351605000327 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C; pfam03174 351605000328 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 351605000329 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 351605000330 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 351605000331 tetramer interface [polypeptide binding]; other site 351605000332 active site 351605000333 Mg2+/Mn2+ binding site [ion binding]; other site 351605000334 Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS) catalyzes...; Region: Ec2MCS_like; cd06108 351605000335 dimer interface [polypeptide binding]; other site 351605000336 Citrate synthase; Region: Citrate_synt; pfam00285 351605000337 active site 351605000338 citrylCoA binding site [chemical binding]; other site 351605000339 oxalacetate/citrate binding site [chemical binding]; other site 351605000340 coenzyme A binding site [chemical binding]; other site 351605000341 catalytic triad [active] 351605000342 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 351605000343 2-methylcitrate dehydratase; Region: prpD; TIGR02330 351605000344 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 351605000345 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 351605000346 homodimer interface [polypeptide binding]; other site 351605000347 Walker A motif; other site 351605000348 ATP binding site [chemical binding]; other site 351605000349 hydroxycobalamin binding site [chemical binding]; other site 351605000350 Walker B motif; other site 351605000351 Geobacter CxxxxCH...CXXCH motif (GSu_C4xC__C2xCH); Region: GSu_C4xC__C2xCH; pfam09698 351605000352 Geobacter CxxxxCH...CXXCH motif (GSu_C4xC__C2xCH); Region: GSu_C4xC__C2xCH; pfam09698 351605000353 Geobacter CxxxxCH...CXXCH motif (GSu_C4xC__C2xCH); Region: GSu_C4xC__C2xCH; pfam09698 351605000354 Geobacter CxxxxCH...CXXCH motif (GSu_C4xC__C2xCH); Region: GSu_C4xC__C2xCH; pfam09698 351605000355 Geobacter CxxxxCH...CXXCH motif (GSu_C4xC__C2xCH); Region: GSu_C4xC__C2xCH; pfam09698 351605000356 Geobacter CxxxxCH...CXXCH motif (GSu_C4xC__C2xCH); Region: GSu_C4xC__C2xCH; pfam09698 351605000357 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 351605000358 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 351605000359 Zn2+ binding site [ion binding]; other site 351605000360 Mg2+ binding site [ion binding]; other site 351605000361 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 351605000362 metal-binding site [ion binding] 351605000363 Predicted membrane protein (DUF2318); Region: DUF2318; pfam10080 351605000364 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 351605000365 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 351605000366 FtsX-like permease family; Region: FtsX; pfam02687 351605000367 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 351605000368 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 351605000369 Walker A/P-loop; other site 351605000370 ATP binding site [chemical binding]; other site 351605000371 Q-loop/lid; other site 351605000372 ABC transporter signature motif; other site 351605000373 Walker B; other site 351605000374 D-loop; other site 351605000375 H-loop/switch region; other site 351605000376 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 351605000377 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 351605000378 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 351605000379 dimer interface [polypeptide binding]; other site 351605000380 phosphorylation site [posttranslational modification] 351605000381 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 351605000382 ATP binding site [chemical binding]; other site 351605000383 Mg2+ binding site [ion binding]; other site 351605000384 G-X-G motif; other site 351605000385 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 351605000386 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605000387 active site 351605000388 phosphorylation site [posttranslational modification] 351605000389 intermolecular recognition site; other site 351605000390 dimerization interface [polypeptide binding]; other site 351605000391 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 351605000392 Walker A motif; other site 351605000393 ATP binding site [chemical binding]; other site 351605000394 Walker B motif; other site 351605000395 arginine finger; other site 351605000396 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 351605000397 Outer membrane efflux protein; Region: OEP; pfam02321 351605000398 Outer membrane efflux protein; Region: OEP; pfam02321 351605000399 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 351605000400 HlyD family secretion protein; Region: HlyD_3; pfam13437 351605000401 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 351605000402 Sporulation and spore germination; Region: Germane; pfam10646 351605000403 Cytochrome C' Region: Cytochrom_C_2; cl01610 351605000404 Glycine/sarcosine/betaine reductase selenoprotein B (GRDB); Region: GRDB; pfam07355 351605000405 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 351605000406 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 351605000407 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 351605000408 DNA binding residues [nucleotide binding] 351605000409 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 351605000410 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 351605000411 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 351605000412 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 351605000413 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 351605000414 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 351605000415 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 351605000416 DNA binding residues [nucleotide binding] 351605000417 Putative zinc-finger; Region: zf-HC2; pfam13490 351605000418 Predicted integral membrane protein (DUF2275); Region: DUF2275; pfam10039 351605000419 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 351605000420 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 351605000421 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 351605000422 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 351605000423 binding surface 351605000424 Tetratricopeptide repeat; Region: TPR_16; pfam13432 351605000425 TPR motif; other site 351605000426 TPR repeat; Region: TPR_11; pfam13414 351605000427 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 351605000428 binding surface 351605000429 TPR motif; other site 351605000430 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 351605000431 Transposase, Mutator family; Region: Transposase_mut; pfam00872 351605000432 MULE transposase domain; Region: MULE; pfam10551 351605000433 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 351605000434 Transposase; Region: DDE_Tnp_ISL3; pfam01610 351605000435 Transposase, Mutator family; Region: Transposase_mut; pfam00872 351605000436 MULE transposase domain; Region: MULE; pfam10551 351605000437 seryl-tRNA synthetase; Region: PLN02678 351605000438 glutamate dehydrogenase 2; Provisional; Region: PTZ00324 351605000439 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 351605000440 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 351605000441 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 351605000442 tetramerization interface [polypeptide binding]; other site 351605000443 NAD(P) binding site [chemical binding]; other site 351605000444 catalytic residues [active] 351605000445 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 351605000446 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 351605000447 Walker A/P-loop; other site 351605000448 ATP binding site [chemical binding]; other site 351605000449 Q-loop/lid; other site 351605000450 ABC transporter signature motif; other site 351605000451 Walker B; other site 351605000452 D-loop; other site 351605000453 H-loop/switch region; other site 351605000454 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 351605000455 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 351605000456 Walker A/P-loop; other site 351605000457 ATP binding site [chemical binding]; other site 351605000458 Q-loop/lid; other site 351605000459 ABC transporter signature motif; other site 351605000460 Walker B; other site 351605000461 D-loop; other site 351605000462 H-loop/switch region; other site 351605000463 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 351605000464 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 351605000465 TM-ABC transporter signature motif; other site 351605000466 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 351605000467 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 351605000468 TM-ABC transporter signature motif; other site 351605000469 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_5; cd06338 351605000470 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 351605000471 putative ligand binding site [chemical binding]; other site 351605000472 PAS fold; Region: PAS; pfam00989 351605000473 PAS fold; Region: PAS_4; pfam08448 351605000474 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 351605000475 putative active site [active] 351605000476 heme pocket [chemical binding]; other site 351605000477 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 351605000478 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 351605000479 Walker A motif; other site 351605000480 ATP binding site [chemical binding]; other site 351605000481 Walker B motif; other site 351605000482 arginine finger; other site 351605000483 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 351605000484 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 351605000485 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 351605000486 inhibitor-cofactor binding pocket; inhibition site 351605000487 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351605000488 catalytic residue [active] 351605000489 Geobacter CxxxxCH...CXXCH motif (GSu_C4xC__C2xCH); Region: GSu_C4xC__C2xCH; pfam09698 351605000490 Geobacter CxxxxCH...CXXCH motif (GSu_C4xC__C2xCH); Region: GSu_C4xC__C2xCH; pfam09698 351605000491 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 351605000492 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 351605000493 glutaminase active site [active] 351605000494 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 351605000495 dimer interface [polypeptide binding]; other site 351605000496 active site 351605000497 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 351605000498 dimer interface [polypeptide binding]; other site 351605000499 active site 351605000500 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14355 351605000501 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 351605000502 Substrate binding site; other site 351605000503 Mg++ binding site; other site 351605000504 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 351605000505 active site 351605000506 substrate binding site [chemical binding]; other site 351605000507 CoA binding site [chemical binding]; other site 351605000508 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 351605000509 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 351605000510 Radical SAM superfamily; Region: Radical_SAM; pfam04055 351605000511 FeS/SAM binding site; other site 351605000512 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 351605000513 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 351605000514 heme-binding residues [chemical binding]; other site 351605000515 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 351605000516 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 351605000517 Domain of unknown function (DUF4403); Region: DUF4403; pfam14356 351605000518 GAF domain; Region: GAF_3; pfam13492 351605000519 GAF domain; Region: GAF_2; pfam13185 351605000520 GAF domain; Region: GAF_2; pfam13185 351605000521 GAF domain; Region: GAF; pfam01590 351605000522 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 351605000523 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 351605000524 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 351605000525 dimer interface [polypeptide binding]; other site 351605000526 phosphorylation site [posttranslational modification] 351605000527 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 351605000528 ATP binding site [chemical binding]; other site 351605000529 Mg2+ binding site [ion binding]; other site 351605000530 G-X-G motif; other site 351605000531 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 351605000532 DNA repair protein RadA; Provisional; Region: PRK11823 351605000533 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 351605000534 Walker A motif/ATP binding site; other site 351605000535 ATP binding site [chemical binding]; other site 351605000536 Walker B motif; other site 351605000537 HEAT repeats; Region: HEAT_2; pfam13646 351605000538 HEAT repeats; Region: HEAT_2; pfam13646 351605000539 HEAT repeats; Region: HEAT_2; pfam13646 351605000540 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 351605000541 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 351605000542 Zn2+ binding site [ion binding]; other site 351605000543 Mg2+ binding site [ion binding]; other site 351605000544 HEAT repeats; Region: HEAT_2; pfam13646 351605000545 HEAT repeats; Region: HEAT_2; pfam13646 351605000546 HEAT repeats; Region: HEAT_2; pfam13646 351605000547 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 351605000548 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 351605000549 dimer interface [polypeptide binding]; other site 351605000550 active site 351605000551 CoA binding pocket [chemical binding]; other site 351605000552 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 351605000553 S-adenosylmethionine binding site [chemical binding]; other site 351605000554 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 351605000555 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 351605000556 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 351605000557 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 351605000558 ATP binding site [chemical binding]; other site 351605000559 putative Mg++ binding site [ion binding]; other site 351605000560 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 351605000561 nucleotide binding region [chemical binding]; other site 351605000562 ATP-binding site [chemical binding]; other site 351605000563 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 351605000564 SurA N-terminal domain; Region: SurA_N_3; cl07813 351605000565 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 351605000566 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 351605000567 SurA N-terminal domain; Region: SurA_N; pfam09312 351605000568 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 351605000569 chaperone protein DnaJ; Provisional; Region: PRK14299 351605000570 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 351605000571 HSP70 interaction site [polypeptide binding]; other site 351605000572 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 351605000573 substrate binding site [polypeptide binding]; other site 351605000574 dimer interface [polypeptide binding]; other site 351605000575 protoporphyrinogen oxidase; Reviewed; Region: PRK11883 351605000576 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 351605000577 cytochrome-c3 hydrogenase subunit gamma; Provisional; Region: PRK08345 351605000578 Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is...; Region: sulfite_reductase_like; cd06221 351605000579 FAD binding pocket [chemical binding]; other site 351605000580 FAD binding motif [chemical binding]; other site 351605000581 phosphate binding motif [ion binding]; other site 351605000582 beta-alpha-beta structure motif; other site 351605000583 NAD binding pocket [chemical binding]; other site 351605000584 Iron coordination center [ion binding]; other site 351605000585 anaerobic sulfite reductase subunit A; Provisional; Region: PRK15055 351605000586 4Fe-4S dicluster domain; Region: Fer4_18; pfam13746 351605000587 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 351605000588 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 351605000589 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 351605000590 Cysteine-rich domain; Region: CCG; pfam02754 351605000591 Cysteine-rich domain; Region: CCG; pfam02754 351605000592 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 351605000593 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 351605000594 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 351605000595 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 351605000596 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 351605000597 Cysteine-rich domain; Region: CCG; pfam02754 351605000598 Cysteine-rich domain; Region: CCG; pfam02754 351605000599 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 351605000600 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 351605000601 L-lactate permease; Region: Lactate_perm; cl00701 351605000602 L-lactate permease; Region: Lactate_perm; cl00701 351605000603 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 351605000604 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 351605000605 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 351605000606 CoA-ligase; Region: Ligase_CoA; pfam00549 351605000607 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 351605000608 CoA binding domain; Region: CoA_binding; smart00881 351605000609 CoA-ligase; Region: Ligase_CoA; pfam00549 351605000610 Transcriptional regulators [Transcription]; Region: FadR; COG2186 351605000611 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 351605000612 DNA-binding site [nucleotide binding]; DNA binding site 351605000613 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 351605000614 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 351605000615 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351605000616 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 351605000617 Walker A/P-loop; other site 351605000618 ATP binding site [chemical binding]; other site 351605000619 Q-loop/lid; other site 351605000620 ABC transporter signature motif; other site 351605000621 Walker B; other site 351605000622 D-loop; other site 351605000623 H-loop/switch region; other site 351605000624 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 351605000625 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 351605000626 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351605000627 Walker A/P-loop; other site 351605000628 ATP binding site [chemical binding]; other site 351605000629 Q-loop/lid; other site 351605000630 ABC transporter signature motif; other site 351605000631 Walker B; other site 351605000632 D-loop; other site 351605000633 H-loop/switch region; other site 351605000634 DNA-damage-inducible protein D; Provisional; Region: dinD; PRK11525 351605000635 Methyltransferase domain; Region: Methyltransf_26; pfam13659 351605000636 Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]; Region: SelB; COG3276 351605000637 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 351605000638 G1 box; other site 351605000639 putative GEF interaction site [polypeptide binding]; other site 351605000640 GTP/Mg2+ binding site [chemical binding]; other site 351605000641 Switch I region; other site 351605000642 G2 box; other site 351605000643 G3 box; other site 351605000644 Switch II region; other site 351605000645 G4 box; other site 351605000646 G5 box; other site 351605000647 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 351605000648 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 351605000649 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 351605000650 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 351605000651 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 351605000652 dimerization interface [polypeptide binding]; other site 351605000653 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 351605000654 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 351605000655 dimer interface [polypeptide binding]; other site 351605000656 putative CheW interface [polypeptide binding]; other site 351605000657 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 351605000658 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 351605000659 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605000660 active site 351605000661 phosphorylation site [posttranslational modification] 351605000662 intermolecular recognition site; other site 351605000663 dimerization interface [polypeptide binding]; other site 351605000664 Isochorismatase family; Region: Isochorismatase; pfam00857 351605000665 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 351605000666 catalytic triad [active] 351605000667 conserved cis-peptide bond; other site 351605000668 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 351605000669 putative active site [active] 351605000670 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 351605000671 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 351605000672 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 351605000673 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 351605000674 Walker A motif; other site 351605000675 ATP binding site [chemical binding]; other site 351605000676 Walker B motif; other site 351605000677 arginine finger; other site 351605000678 Ferrochelatase; Region: Ferrochelatase; pfam00762 351605000679 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 351605000680 C-terminal domain interface [polypeptide binding]; other site 351605000681 active site 351605000682 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 351605000683 active site 351605000684 N-terminal domain interface [polypeptide binding]; other site 351605000685 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 351605000686 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 351605000687 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 351605000688 RNA binding surface [nucleotide binding]; other site 351605000689 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 351605000690 active site 351605000691 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 351605000692 dimer interface [polypeptide binding]; other site 351605000693 ADP-ribose binding site [chemical binding]; other site 351605000694 active site 351605000695 nudix motif; other site 351605000696 metal binding site [ion binding]; metal-binding site 351605000697 Dodecin; Region: Dodecin; pfam07311 351605000698 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 351605000699 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 351605000700 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 351605000701 diiron binding motif [ion binding]; other site 351605000702 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 351605000703 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 351605000704 NAD(P) binding site [chemical binding]; other site 351605000705 SEC-C motif; Region: SEC-C; pfam02810 351605000706 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 351605000707 SEC-C motif; Region: SEC-C; pfam02810 351605000708 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 351605000709 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 351605000710 putative active site [active] 351605000711 putative NTP binding site [chemical binding]; other site 351605000712 putative nucleic acid binding site [nucleotide binding]; other site 351605000713 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 351605000714 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 351605000715 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 351605000716 putative NAD(P) binding site [chemical binding]; other site 351605000717 active site 351605000718 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 351605000719 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 351605000720 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 351605000721 active site 351605000722 dimer interface [polypeptide binding]; other site 351605000723 effector binding site; other site 351605000724 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 351605000725 Protein of unknown function (DUF805); Region: DUF805; pfam05656 351605000726 MoxR-like ATPases [General function prediction only]; Region: COG0714 351605000727 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 351605000728 Walker A motif; other site 351605000729 ATP binding site [chemical binding]; other site 351605000730 Walker B motif; other site 351605000731 arginine finger; other site 351605000732 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 351605000733 Protein of unknown function DUF58; Region: DUF58; pfam01882 351605000734 von Willebrand factor type A domain; Region: VWA_2; pfam13519 351605000735 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 351605000736 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 351605000737 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 351605000738 zinc-ribbon domain; Region: zinc_ribbon_5; pfam13719 351605000739 Double zinc ribbon; Region: DZR; pfam12773 351605000740 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 351605000741 Putative catalytic domain, repeat 1, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_1; cd09157 351605000742 putative active site [active] 351605000743 catalytic site [active] 351605000744 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_2; cd09163 351605000745 putative active site [active] 351605000746 catalytic site [active] 351605000747 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 351605000748 16S rRNA methyltransferase B; Provisional; Region: PRK14902 351605000749 NusB family; Region: NusB; pfam01029 351605000750 putative RNA binding site [nucleotide binding]; other site 351605000751 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 351605000752 S-adenosylmethionine binding site [chemical binding]; other site 351605000753 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 351605000754 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 351605000755 substrate binding site [chemical binding]; other site 351605000756 hexamer interface [polypeptide binding]; other site 351605000757 metal binding site [ion binding]; metal-binding site 351605000758 Response regulator receiver domain; Region: Response_reg; pfam00072 351605000759 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605000760 active site 351605000761 phosphorylation site [posttranslational modification] 351605000762 intermolecular recognition site; other site 351605000763 dimerization interface [polypeptide binding]; other site 351605000764 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351605000765 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351605000766 metal binding site [ion binding]; metal-binding site 351605000767 active site 351605000768 I-site; other site 351605000769 Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]; Region: COG2231 351605000770 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 351605000771 minor groove reading motif; other site 351605000772 helix-hairpin-helix signature motif; other site 351605000773 substrate binding pocket [chemical binding]; other site 351605000774 active site 351605000775 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 351605000776 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 351605000777 trimer interface [polypeptide binding]; other site 351605000778 putative metal binding site [ion binding]; other site 351605000779 Quinolinate synthetase A protein; Region: NadA; pfam02445 351605000780 twin arginine translocase protein A; Provisional; Region: tatA; PRK14858 351605000781 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 351605000782 binding surface 351605000783 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 351605000784 TPR motif; other site 351605000785 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 351605000786 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 351605000787 ligand binding site [chemical binding]; other site 351605000788 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 351605000789 TolB amino-terminal domain; Region: TolB_N; pfam04052 351605000790 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 351605000791 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 351605000792 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 351605000793 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 351605000794 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 351605000795 TonB C terminal; Region: TonB_2; pfam13103 351605000796 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 351605000797 TolR protein; Region: tolR; TIGR02801 351605000798 TolQ protein; Region: tolQ; TIGR02796 351605000799 Predicted amidohydrolase [General function prediction only]; Region: COG0388 351605000800 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_5; cd07583 351605000801 putative active site [active] 351605000802 catalytic triad [active] 351605000803 putative dimer interface [polypeptide binding]; other site 351605000804 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 351605000805 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 351605000806 FeS/SAM binding site; other site 351605000807 HemN C-terminal domain; Region: HemN_C; pfam06969 351605000808 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 351605000809 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 351605000810 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 351605000811 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 351605000812 dimer interface [polypeptide binding]; other site 351605000813 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 351605000814 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 351605000815 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 351605000816 nucleotide binding site [chemical binding]; other site 351605000817 NEF interaction site [polypeptide binding]; other site 351605000818 SBD interface [polypeptide binding]; other site 351605000819 chaperone protein DnaJ; Provisional; Region: PRK10767 351605000820 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 351605000821 HSP70 interaction site [polypeptide binding]; other site 351605000822 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 351605000823 substrate binding site [polypeptide binding]; other site 351605000824 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 351605000825 Zn binding sites [ion binding]; other site 351605000826 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 351605000827 dimer interface [polypeptide binding]; other site 351605000828 Putative catalytic domain of uncharacterized phospholipase D-like proteins; Region: PLDc_unchar3; cd09131 351605000829 PLD-like domain; Region: PLDc_2; pfam13091 351605000830 putative active site [active] 351605000831 putative catalytic site [active] 351605000832 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 351605000833 AIR carboxylase; Region: AIRC; smart01001 351605000834 hypothetical protein; Provisional; Region: PRK04194 351605000835 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 351605000836 tetramer interfaces [polypeptide binding]; other site 351605000837 binuclear metal-binding site [ion binding]; other site 351605000838 competence damage-inducible protein A; Provisional; Region: PRK00549 351605000839 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 351605000840 putative MPT binding site; other site 351605000841 Competence-damaged protein; Region: CinA; pfam02464 351605000842 PAS domain S-box; Region: sensory_box; TIGR00229 351605000843 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 351605000844 putative active site [active] 351605000845 heme pocket [chemical binding]; other site 351605000846 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 351605000847 GAF domain; Region: GAF_3; pfam13492 351605000848 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 351605000849 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 351605000850 dimer interface [polypeptide binding]; other site 351605000851 phosphorylation site [posttranslational modification] 351605000852 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 351605000853 ATP binding site [chemical binding]; other site 351605000854 Mg2+ binding site [ion binding]; other site 351605000855 G-X-G motif; other site 351605000856 recombinase A; Provisional; Region: recA; PRK09354 351605000857 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 351605000858 hexamer interface [polypeptide binding]; other site 351605000859 Walker A motif; other site 351605000860 ATP binding site [chemical binding]; other site 351605000861 Walker B motif; other site 351605000862 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 351605000863 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 351605000864 Walker A motif; other site 351605000865 ATP binding site [chemical binding]; other site 351605000866 Walker B motif; other site 351605000867 recombination regulator RecX; Reviewed; Region: recX; PRK00117 351605000868 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 351605000869 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 351605000870 motif 1; other site 351605000871 active site 351605000872 motif 2; other site 351605000873 motif 3; other site 351605000874 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 351605000875 DHHA1 domain; Region: DHHA1; pfam02272 351605000876 Cupin domain; Region: Cupin_2; pfam07883 351605000877 Response regulator receiver domain; Region: Response_reg; pfam00072 351605000878 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605000879 active site 351605000880 phosphorylation site [posttranslational modification] 351605000881 intermolecular recognition site; other site 351605000882 dimerization interface [polypeptide binding]; other site 351605000883 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 351605000884 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 351605000885 dimer interface [polypeptide binding]; other site 351605000886 phosphorylation site [posttranslational modification] 351605000887 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 351605000888 ATP binding site [chemical binding]; other site 351605000889 Mg2+ binding site [ion binding]; other site 351605000890 G-X-G motif; other site 351605000891 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 351605000892 feedback inhibition sensing region; other site 351605000893 homohexameric interface [polypeptide binding]; other site 351605000894 nucleotide binding site [chemical binding]; other site 351605000895 N-acetyl-L-glutamate binding site [chemical binding]; other site 351605000896 acetylornithine aminotransferase; Provisional; Region: PRK02627 351605000897 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 351605000898 inhibitor-cofactor binding pocket; inhibition site 351605000899 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351605000900 catalytic residue [active] 351605000901 ornithine carbamoyltransferase; Provisional; Region: PRK00779 351605000902 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 351605000903 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 351605000904 argininosuccinate synthase; Provisional; Region: PRK13820 351605000905 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 351605000906 ANP binding site [chemical binding]; other site 351605000907 Substrate Binding Site II [chemical binding]; other site 351605000908 Substrate Binding Site I [chemical binding]; other site 351605000909 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 351605000910 nudix motif; other site 351605000911 argininosuccinate lyase; Provisional; Region: PRK00855 351605000912 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 351605000913 active sites [active] 351605000914 tetramer interface [polypeptide binding]; other site 351605000915 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 351605000916 Interdomain contacts; other site 351605000917 diaminopimelate decarboxylase; Region: lysA; TIGR01048 351605000918 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 351605000919 active site 351605000920 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 351605000921 substrate binding site [chemical binding]; other site 351605000922 catalytic residues [active] 351605000923 dimer interface [polypeptide binding]; other site 351605000924 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 351605000925 dihydrodipicolinate synthase; Region: dapA; TIGR00674 351605000926 dimer interface [polypeptide binding]; other site 351605000927 active site 351605000928 catalytic residue [active] 351605000929 dihydrodipicolinate reductase; Provisional; Region: PRK00048 351605000930 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 351605000931 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 351605000932 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 351605000933 active site 351605000934 NTP binding site [chemical binding]; other site 351605000935 metal binding triad [ion binding]; metal-binding site 351605000936 antibiotic binding site [chemical binding]; other site 351605000937 HEPN domain; Region: HEPN; pfam05168 351605000938 L,L-diaminopimelate aminotransferase; Validated; Region: PRK07590 351605000939 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 351605000940 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351605000941 homodimer interface [polypeptide binding]; other site 351605000942 catalytic residue [active] 351605000943 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 351605000944 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 351605000945 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 351605000946 active site 351605000947 NTP binding site [chemical binding]; other site 351605000948 metal binding triad [ion binding]; metal-binding site 351605000949 antibiotic binding site [chemical binding]; other site 351605000950 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; pfam05014 351605000951 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 351605000952 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 351605000953 Zn2+ binding site [ion binding]; other site 351605000954 Mg2+ binding site [ion binding]; other site 351605000955 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 351605000956 Transposase, Mutator family; Region: Transposase_mut; pfam00872 351605000957 MULE transposase domain; Region: MULE; pfam10551 351605000958 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 351605000959 Flagellin N-methylase; Region: FliB; cl00497 351605000960 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 351605000961 Domain of Unknown Function with PDB structure (DUF3862); Region: DUF3862; pfam12978 351605000962 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 351605000963 Major Facilitator Superfamily; Region: MFS_1; pfam07690 351605000964 putative substrate translocation pore; other site 351605000965 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 351605000966 oxidoreductase; Validated; Region: PRK05717 351605000967 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 351605000968 NAD(P) binding site [chemical binding]; other site 351605000969 active site 351605000970 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 351605000971 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 351605000972 putative active site [active] 351605000973 putative NTP binding site [chemical binding]; other site 351605000974 putative nucleic acid binding site [nucleotide binding]; other site 351605000975 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 351605000976 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 351605000977 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 351605000978 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 351605000979 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 351605000980 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 351605000981 active site 351605000982 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 351605000983 non-specific DNA binding site [nucleotide binding]; other site 351605000984 salt bridge; other site 351605000985 sequence-specific DNA binding site [nucleotide binding]; other site 351605000986 Protein-arginine deiminase (PAD) N-terminal domain; Region: PAD_N; pfam08526 351605000987 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 351605000988 CoenzymeA binding site [chemical binding]; other site 351605000989 subunit interaction site [polypeptide binding]; other site 351605000990 PHB binding site; other site 351605000991 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 351605000992 Active_site [active] 351605000993 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 351605000994 Predicted membrane protein [Function unknown]; Region: COG2860 351605000995 UPF0126 domain; Region: UPF0126; pfam03458 351605000996 CHASE4 domain; Region: CHASE4; pfam05228 351605000997 PAS domain; Region: PAS_9; pfam13426 351605000998 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 351605000999 putative active site [active] 351605001000 heme pocket [chemical binding]; other site 351605001001 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 351605001002 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 351605001003 substrate binding site [chemical binding]; other site 351605001004 serine/threonine protein kinase; Provisional; Region: PRK11768 351605001005 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 351605001006 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 351605001007 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 351605001008 dimerization interface [polypeptide binding]; other site 351605001009 PAS domain S-box; Region: sensory_box; TIGR00229 351605001010 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 351605001011 putative active site [active] 351605001012 heme pocket [chemical binding]; other site 351605001013 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 351605001014 dimer interface [polypeptide binding]; other site 351605001015 phosphorylation site [posttranslational modification] 351605001016 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 351605001017 ATP binding site [chemical binding]; other site 351605001018 Mg2+ binding site [ion binding]; other site 351605001019 G-X-G motif; other site 351605001020 Response regulator receiver domain; Region: Response_reg; pfam00072 351605001021 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605001022 active site 351605001023 phosphorylation site [posttranslational modification] 351605001024 intermolecular recognition site; other site 351605001025 dimerization interface [polypeptide binding]; other site 351605001026 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 351605001027 catalytic residues [active] 351605001028 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 351605001029 D-galactonate transporter; Region: 2A0114; TIGR00893 351605001030 putative substrate translocation pore; other site 351605001031 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 351605001032 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 351605001033 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 351605001034 FMN binding site [chemical binding]; other site 351605001035 active site 351605001036 catalytic residues [active] 351605001037 substrate binding site [chemical binding]; other site 351605001038 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 351605001039 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 351605001040 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 351605001041 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 351605001042 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 351605001043 hypothetical protein; Provisional; Region: PRK11239 351605001044 Protein of unknown function, DUF480; Region: DUF480; pfam04337 351605001045 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 351605001046 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 351605001047 ATP binding site [chemical binding]; other site 351605001048 Mg2+ binding site [ion binding]; other site 351605001049 G-X-G motif; other site 351605001050 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 351605001051 putative active site [active] 351605001052 putative CoA binding site [chemical binding]; other site 351605001053 nudix motif; other site 351605001054 metal binding site [ion binding]; metal-binding site 351605001055 HDOD domain; Region: HDOD; pfam08668 351605001056 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 351605001057 Zn2+ binding site [ion binding]; other site 351605001058 Mg2+ binding site [ion binding]; other site 351605001059 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605001060 active site 351605001061 phosphorylation site [posttranslational modification] 351605001062 intermolecular recognition site; other site 351605001063 dimerization interface [polypeptide binding]; other site 351605001064 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351605001065 metal binding site [ion binding]; metal-binding site 351605001066 active site 351605001067 I-site; other site 351605001068 Protein of unknown function (DUF2288); Region: DUF2288; pfam10052 351605001069 Protein of unknown function (DUF1847); Region: DUF1847; pfam08901 351605001070 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 351605001071 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 351605001072 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 351605001073 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 351605001074 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 351605001075 putative active site [active] 351605001076 putative metal binding site [ion binding]; other site 351605001077 seryl-tRNA synthetase; Provisional; Region: PRK05431 351605001078 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 351605001079 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 351605001080 dimer interface [polypeptide binding]; other site 351605001081 active site 351605001082 motif 1; other site 351605001083 motif 2; other site 351605001084 motif 3; other site 351605001085 Uncharacterized protein conserved in bacteria (DUF2155); Region: DUF2155; cl01970 351605001086 twin arginine translocase protein A; Provisional; Region: tatA; PRK14859 351605001087 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 351605001088 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605001089 active site 351605001090 phosphorylation site [posttranslational modification] 351605001091 intermolecular recognition site; other site 351605001092 dimerization interface [polypeptide binding]; other site 351605001093 excinuclease ABC subunit B; Provisional; Region: PRK05298 351605001094 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 351605001095 ATP binding site [chemical binding]; other site 351605001096 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 351605001097 nucleotide binding region [chemical binding]; other site 351605001098 ATP-binding site [chemical binding]; other site 351605001099 Ultra-violet resistance protein B; Region: UvrB; pfam12344 351605001100 UvrB/uvrC motif; Region: UVR; pfam02151 351605001101 poly(A) polymerase; Region: pcnB; TIGR01942 351605001102 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 351605001103 active site 351605001104 NTP binding site [chemical binding]; other site 351605001105 metal binding triad [ion binding]; metal-binding site 351605001106 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 351605001107 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 351605001108 hypothetical protein; Provisional; Region: PRK10410 351605001109 Ferredoxin [Energy production and conversion]; Region: COG1146 351605001110 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 351605001111 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 351605001112 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 351605001113 dimer interface [polypeptide binding]; other site 351605001114 decamer (pentamer of dimers) interface [polypeptide binding]; other site 351605001115 catalytic triad [active] 351605001116 peroxidatic and resolving cysteines [active] 351605001117 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like2_exo; cd05785 351605001118 DNA polymerase elongation subunit (family B) [DNA replication, recombination, and repair]; Region: PolB; COG0417 351605001119 active site 351605001120 catalytic site [active] 351605001121 substrate binding site [chemical binding]; other site 351605001122 DNA polymerase type-II B subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as...; Region: POLBc_Pol_II_B; cd05538 351605001123 active site 351605001124 metal-binding site 351605001125 putative exosortase-associated protein, TIGR04073 family; Region: exo_TIGR04073 351605001126 putative exosortase-associated protein, TIGR04073 family; Region: exo_TIGR04073 351605001127 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 351605001128 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 351605001129 FeS/SAM binding site; other site 351605001130 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 351605001131 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; pfam10105 351605001132 ribonuclease G; Provisional; Region: PRK11712 351605001133 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 351605001134 homodimer interface [polypeptide binding]; other site 351605001135 oligonucleotide binding site [chemical binding]; other site 351605001136 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 351605001137 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 351605001138 ATP-grasp domain; Region: ATP-grasp; pfam02222 351605001139 Ferredoxin subunits of nitrite reductase and ring-hydroxylating dioxygenases [Inorganic ion transport and metabolism / General function prediction only]; Region: {NirD}; COG2146 351605001140 iron-sulfur cluster [ion binding]; other site 351605001141 [2Fe-2S] cluster binding site [ion binding]; other site 351605001142 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 351605001143 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 351605001144 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 351605001145 GTPase CgtA; Reviewed; Region: obgE; PRK12299 351605001146 GTP1/OBG; Region: GTP1_OBG; pfam01018 351605001147 Obg GTPase; Region: Obg; cd01898 351605001148 G1 box; other site 351605001149 GTP/Mg2+ binding site [chemical binding]; other site 351605001150 Switch I region; other site 351605001151 G2 box; other site 351605001152 G3 box; other site 351605001153 Switch II region; other site 351605001154 G4 box; other site 351605001155 G5 box; other site 351605001156 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 351605001157 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like; cd07473 351605001158 catalytic triad [active] 351605001159 putative active site [active] 351605001160 Putative Ig domain; Region: He_PIG; pfam05345 351605001161 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 351605001162 active site 351605001163 Putative Ig domain; Region: He_PIG; pfam05345 351605001164 PIN domain; Region: PIN_3; cl17397 351605001165 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 351605001166 Plasmid encoded toxin Txe; Region: Plasmid_Txe; cl17389 351605001167 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 351605001168 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 351605001169 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 351605001170 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 351605001171 Homeodomain-like domain; Region: HTH_32; pfam13565 351605001172 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 351605001173 Integrase core domain; Region: rve; pfam00665 351605001174 Integrase core domain; Region: rve_3; pfam13683 351605001175 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 351605001176 Transposase; Region: DDE_Tnp_ISL3; pfam01610 351605001177 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 351605001178 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 351605001179 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 351605001180 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 351605001181 NADH:ubiquinone oxidoreductase subunit 6 (chain J) [Energy production and conversion]; Region: NuoJ; COG0839 351605001182 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 351605001183 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 351605001184 4Fe-4S binding domain; Region: Fer4; pfam00037 351605001185 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 351605001186 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 351605001187 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 351605001188 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 351605001189 NADH-quinone oxidoreductase, chain G; Region: NuoG; TIGR01973 351605001190 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 351605001191 catalytic loop [active] 351605001192 iron binding site [ion binding]; other site 351605001193 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 351605001194 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 351605001195 molybdopterin cofactor binding site; other site 351605001196 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351605001197 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351605001198 metal binding site [ion binding]; metal-binding site 351605001199 active site 351605001200 I-site; other site 351605001201 Predicted hydrocarbon binding protein (contains V4R domain) [General function prediction only]; Region: COG1719 351605001202 The V4R (vinyl 4 reductase) domain is a predicted small molecular binding domain, that may bind to hydrocarbons; Region: V4R; smart00989 351605001203 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 351605001204 SLBB domain; Region: SLBB; pfam10531 351605001205 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 351605001206 Uncharacterized conserved protein [Function unknown]; Region: COG3189 351605001207 Cytochrome c; Region: Cytochrom_C; cl11414 351605001208 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 351605001209 NADH dehydrogenase subunit E; Validated; Region: PRK07539 351605001210 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 351605001211 putative dimer interface [polypeptide binding]; other site 351605001212 [2Fe-2S] cluster binding site [ion binding]; other site 351605001213 trifunctional NADH dehydrogenase I subunit B/C/D; Provisional; Region: PRK13292 351605001214 NADH dehydrogenase subunit B; Validated; Region: PRK06411 351605001215 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 351605001216 NADH dehydrogenase subunit D; Validated; Region: PRK06075 351605001217 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 351605001218 thioredoxin 2; Provisional; Region: PRK10996 351605001219 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 351605001220 catalytic residues [active] 351605001221 glycine dehydrogenase subunit 2; Validated; Region: PRK04366 351605001222 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 351605001223 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 351605001224 catalytic residue [active] 351605001225 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 351605001226 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 351605001227 tetramer interface [polypeptide binding]; other site 351605001228 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351605001229 catalytic residue [active] 351605001230 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 351605001231 lipoyl attachment site [posttranslational modification]; other site 351605001232 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 351605001233 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 351605001234 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 351605001235 nucleoside/Zn binding site; other site 351605001236 dimer interface [polypeptide binding]; other site 351605001237 catalytic motif [active] 351605001238 elongation factor P; Provisional; Region: PRK14578 351605001239 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 351605001240 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 351605001241 RNA binding site [nucleotide binding]; other site 351605001242 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 351605001243 RNA binding site [nucleotide binding]; other site 351605001244 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 351605001245 RNA binding surface [nucleotide binding]; other site 351605001246 translation initiation factor Sui1; Validated; Region: PRK06824 351605001247 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 351605001248 putative rRNA binding site [nucleotide binding]; other site 351605001249 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 351605001250 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 351605001251 putative active site [active] 351605001252 heme pocket [chemical binding]; other site 351605001253 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 351605001254 dimer interface [polypeptide binding]; other site 351605001255 phosphorylation site [posttranslational modification] 351605001256 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 351605001257 ATP binding site [chemical binding]; other site 351605001258 Mg2+ binding site [ion binding]; other site 351605001259 G-X-G motif; other site 351605001260 ribonuclease Z; Provisional; Region: PRK02126 351605001261 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 351605001262 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 351605001263 dimer interface [polypeptide binding]; other site 351605001264 active site 351605001265 Schiff base residues; other site 351605001266 cell division protein; Validated; Region: ftsH; CHL00176 351605001267 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 351605001268 dimerization interface [polypeptide binding]; other site 351605001269 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 351605001270 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 351605001271 dimer interface [polypeptide binding]; other site 351605001272 putative CheW interface [polypeptide binding]; other site 351605001273 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 351605001274 dimer interface [polypeptide binding]; other site 351605001275 putative CheW interface [polypeptide binding]; other site 351605001276 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 351605001277 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 351605001278 membrane-bound complex binding site; other site 351605001279 hinge residues; other site 351605001280 Uncharacterized conserved protein [Function unknown]; Region: COG2006 351605001281 Domain of unknown function (DUF362); Region: DUF362; pfam04015 351605001282 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 351605001283 Putative addiction module component; Region: Unstab_antitox; pfam09720 351605001284 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 351605001285 active site 351605001286 NTP binding site [chemical binding]; other site 351605001287 metal binding triad [ion binding]; metal-binding site 351605001288 antibiotic binding site [chemical binding]; other site 351605001289 YcfA-like protein; Region: YcfA; pfam07927 351605001290 Domain of unknown function (DUF1992); Region: DUF1992; cl08096 351605001291 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 351605001292 active site 351605001293 SAM binding site [chemical binding]; other site 351605001294 homodimer interface [polypeptide binding]; other site 351605001295 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 351605001296 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 351605001297 active site 351605001298 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 351605001299 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 351605001300 domain interfaces; other site 351605001301 active site 351605001302 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 351605001303 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 351605001304 tRNA; other site 351605001305 putative tRNA binding site [nucleotide binding]; other site 351605001306 putative NADP binding site [chemical binding]; other site 351605001307 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 351605001308 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 351605001309 precorrin-2 dehydrogenase; Reviewed; Region: PRK06718 351605001310 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 351605001311 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 351605001312 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 351605001313 catalytic residues [active] 351605001314 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 351605001315 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 351605001316 catalytic residues [active] 351605001317 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 351605001318 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 351605001319 GIY-YIG motif/motif A; other site 351605001320 active site 351605001321 catalytic site [active] 351605001322 putative DNA binding site [nucleotide binding]; other site 351605001323 metal binding site [ion binding]; metal-binding site 351605001324 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 351605001325 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 351605001326 Tetratricopeptide repeat; Region: TPR_6; pfam13174 351605001327 Chlamydia cysteine-rich outer membrane protein 6; Region: Chlam_OMP6; pfam03504 351605001328 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 351605001329 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 351605001330 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 351605001331 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 351605001332 ATP binding site [chemical binding]; other site 351605001333 Mg++ binding site [ion binding]; other site 351605001334 motif III; other site 351605001335 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 351605001336 nucleotide binding region [chemical binding]; other site 351605001337 ATP-binding site [chemical binding]; other site 351605001338 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 351605001339 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 351605001340 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 351605001341 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 351605001342 active site 351605001343 NTP binding site [chemical binding]; other site 351605001344 metal binding triad [ion binding]; metal-binding site 351605001345 antibiotic binding site [chemical binding]; other site 351605001346 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 351605001347 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 351605001348 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 351605001349 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 351605001350 ATP binding site [chemical binding]; other site 351605001351 putative Mg++ binding site [ion binding]; other site 351605001352 FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1; Region: FYVE; cl17764 351605001353 Zn binding sites [ion binding]; other site 351605001354 phosphatidylinositol 3-phosphate binding site [chemical binding]; other site 351605001355 helicase superfamily c-terminal domain; Region: HELICc; smart00490 351605001356 ATP-binding site [chemical binding]; other site 351605001357 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 351605001358 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 351605001359 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 351605001360 dimerization interface [polypeptide binding]; other site 351605001361 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 351605001362 dimer interface [polypeptide binding]; other site 351605001363 putative CheW interface [polypeptide binding]; other site 351605001364 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 351605001365 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 351605001366 B12 binding site [chemical binding]; other site 351605001367 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 351605001368 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 351605001369 FeS/SAM binding site; other site 351605001370 Predicted exonuclease [DNA replication, recombination, and repair]; Region: COG3359 351605001371 RNase_H superfamily; Region: RNase_H_2; pfam13482 351605001372 active site 351605001373 substrate binding site [chemical binding]; other site 351605001374 catalytic site [active] 351605001375 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 351605001376 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351605001377 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351605001378 metal binding site [ion binding]; metal-binding site 351605001379 active site 351605001380 I-site; other site 351605001381 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 351605001382 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 351605001383 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 351605001384 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 351605001385 putative catalytic residues [active] 351605001386 Peptidase S8 family domain in Kp43 proteases; Region: Peptidases_S8_Kp43_protease; cd04842 351605001387 active site 351605001388 catalytic triad [active] 351605001389 CARDB; Region: CARDB; pfam07705 351605001390 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 351605001391 SnoaL-like domain; Region: SnoaL_3; pfam13474 351605001392 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 351605001393 putative active site [active] 351605001394 heme pocket [chemical binding]; other site 351605001395 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 351605001396 ATP binding site [chemical binding]; other site 351605001397 Mg2+ binding site [ion binding]; other site 351605001398 G-X-G motif; other site 351605001399 Response regulator receiver domain; Region: Response_reg; pfam00072 351605001400 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605001401 active site 351605001402 phosphorylation site [posttranslational modification] 351605001403 intermolecular recognition site; other site 351605001404 dimerization interface [polypeptide binding]; other site 351605001405 Glutamate synthase domain 1 [Amino acid transport and metabolism]; Region: GltB; COG0067 351605001406 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 351605001407 active site 351605001408 dimer interface [polypeptide binding]; other site 351605001409 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 351605001410 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 351605001411 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 351605001412 active site 351605001413 FMN binding site [chemical binding]; other site 351605001414 substrate binding site [chemical binding]; other site 351605001415 3Fe-4S cluster binding site [ion binding]; other site 351605001416 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cd00504 351605001417 domain_subunit interface; other site 351605001418 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 351605001419 propionate/acetate kinase; Provisional; Region: PRK12379 351605001420 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 351605001421 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 351605001422 catalytic triad [active] 351605001423 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 351605001424 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 351605001425 Geobacter CxxxxCH...CXXCH motif (GSu_C4xC__C2xCH); Region: GSu_C4xC__C2xCH; pfam09698 351605001426 lipoyl synthase; Provisional; Region: PRK05481 351605001427 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 351605001428 FeS/SAM binding site; other site 351605001429 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 351605001430 Peptidase family M23; Region: Peptidase_M23; pfam01551 351605001431 Domain of unknown function (DUF309); Region: DUF309; pfam03745 351605001432 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 351605001433 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 351605001434 UbiA prenyltransferase family; Region: UbiA; pfam01040 351605001435 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 351605001436 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 351605001437 NorE_like subfamily of heme-copper oxidase subunit III. Heme-copper oxidases include cytochrome c and ubiquinol oxidases. Alcaligenes faecalis norE is found in a gene cluster containing norCB. norCB encodes the cytochrome c and cytochrome b subunits of...; Region: NorE_like; cd02862 351605001438 Subunit I/III interface [polypeptide binding]; other site 351605001439 cytochrome c oxidase, subunit I; Region: CtaD_CoxA; TIGR02891 351605001440 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 351605001441 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 351605001442 active site 351605001443 NTP binding site [chemical binding]; other site 351605001444 metal binding triad [ion binding]; metal-binding site 351605001445 antibiotic binding site [chemical binding]; other site 351605001446 Protein of unknown function DUF86; Region: DUF86; cl01031 351605001447 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 351605001448 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 351605001449 PhnA protein; Region: PhnA; pfam03831 351605001450 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 351605001451 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 351605001452 non-specific DNA binding site [nucleotide binding]; other site 351605001453 salt bridge; other site 351605001454 sequence-specific DNA binding site [nucleotide binding]; other site 351605001455 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 351605001456 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 351605001457 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 351605001458 Cytochrome c; Region: Cytochrom_C; cl11414 351605001459 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 351605001460 Cu(I) binding site [ion binding]; other site 351605001461 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 351605001462 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 351605001463 V-type ATP synthase subunit I; Validated; Region: PRK05771 351605001464 V-type ATP synthase subunit I; Validated; Region: PRK05771 351605001465 ATP synthase subunit C; Region: ATP-synt_C; pfam00137 351605001466 Archaeal/vacuolar-type H+-ATPase subunit E [Energy production and conversion]; Region: NtpE; COG1390 351605001467 V-type ATP synthase subunit E; Provisional; Region: PRK03963; cl17074 351605001468 ATP synthase (F/14-kDa) subunit; Region: ATP-synt_F; pfam01990 351605001469 V-type ATP synthase subunit A; Provisional; Region: PRK04192 351605001470 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 351605001471 V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_A; cd01134 351605001472 Walker A motif/ATP binding site; other site 351605001473 Walker B motif; other site 351605001474 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 351605001475 PAS domain S-box; Region: sensory_box; TIGR00229 351605001476 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 351605001477 putative active site [active] 351605001478 heme pocket [chemical binding]; other site 351605001479 PAS domain S-box; Region: sensory_box; TIGR00229 351605001480 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 351605001481 putative active site [active] 351605001482 heme pocket [chemical binding]; other site 351605001483 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 351605001484 dimer interface [polypeptide binding]; other site 351605001485 phosphorylation site [posttranslational modification] 351605001486 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 351605001487 ATP binding site [chemical binding]; other site 351605001488 Mg2+ binding site [ion binding]; other site 351605001489 G-X-G motif; other site 351605001490 V-type ATP synthase subunit B; Provisional; Region: PRK04196 351605001491 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 351605001492 V/A-type ATP synthase (non-catalytic) subunit B. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_B; cd01135 351605001493 Walker A motif homologous position; other site 351605001494 Walker B motif; other site 351605001495 ATP synthase subunit D; Region: ATP-synt_D; pfam01813 351605001496 Fic family protein [Function unknown]; Region: COG3177 351605001497 Fic/DOC family; Region: Fic; pfam02661 351605001498 Mechanosensitive ion channel; Region: MS_channel; pfam00924 351605001499 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 351605001500 Walker A motif; other site 351605001501 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 351605001502 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 351605001503 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 351605001504 diiron binding motif [ion binding]; other site 351605001505 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 351605001506 putative active site [active] 351605001507 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 351605001508 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 351605001509 Hemerythrin-like domain; Region: Hr-like; cd12108 351605001510 putative metalloenzyme radical SAM/SPASM domain maturase; Region: rSAM_Geo_metal; TIGR04311 351605001511 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 351605001512 FeS/SAM binding site; other site 351605001513 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 351605001514 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 351605001515 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 351605001516 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 351605001517 catalytic residues [active] 351605001518 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 351605001519 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 351605001520 active site residue [active] 351605001521 Predicted permeases [General function prediction only]; Region: COG0701 351605001522 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 351605001523 dimerization interface [polypeptide binding]; other site 351605001524 putative DNA binding site [nucleotide binding]; other site 351605001525 putative Zn2+ binding site [ion binding]; other site 351605001526 Ferredoxin [Energy production and conversion]; Region: COG1146 351605001527 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 351605001528 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 351605001529 Transcriptional regulator [Transcription]; Region: LysR; COG0583 351605001530 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 351605001531 LysR substrate binding domain; Region: LysR_substrate; pfam03466 351605001532 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 351605001533 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 351605001534 active site residue [active] 351605001535 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 351605001536 active site residue [active] 351605001537 Transcriptional regulator [Transcription]; Region: LysR; COG0583 351605001538 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 351605001539 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 351605001540 dimerization interface [polypeptide binding]; other site 351605001541 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 351605001542 active site residue [active] 351605001543 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 351605001544 active site residue [active] 351605001545 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 351605001546 heme-binding residues [chemical binding]; other site 351605001547 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 351605001548 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 351605001549 iron-sulfur cluster [ion binding]; other site 351605001550 [2Fe-2S] cluster binding site [ion binding]; other site 351605001551 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 351605001552 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 351605001553 intrachain domain interface; other site 351605001554 heme bH binding site [chemical binding]; other site 351605001555 heme bL binding site [chemical binding]; other site 351605001556 interchain domain interface [polypeptide binding]; other site 351605001557 Qo binding site; other site 351605001558 Cytochrome c; Region: Cytochrom_C; cl11414 351605001559 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 351605001560 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 351605001561 dimer interface [polypeptide binding]; other site 351605001562 putative functional site; other site 351605001563 putative MPT binding site; other site 351605001564 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 351605001565 Walker A motif; other site 351605001566 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 351605001567 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 351605001568 GTP binding site; other site 351605001569 DGC domain; Region: DGC; pfam08859 351605001570 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 351605001571 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 351605001572 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 351605001573 DNA binding residues [nucleotide binding] 351605001574 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 351605001575 arsenical-resistance protein; Region: acr3; TIGR00832 351605001576 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 351605001577 dimerization interface [polypeptide binding]; other site 351605001578 putative DNA binding site [nucleotide binding]; other site 351605001579 putative Zn2+ binding site [ion binding]; other site 351605001580 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 351605001581 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 351605001582 This CD includes the respiratory arsenate reductase, As(V), catalytic subunit (ArrA) and other related proteins. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_Arsenate-R; cd02757 351605001583 putative [Fe4-S4] binding site [ion binding]; other site 351605001584 putative molybdopterin cofactor binding site [chemical binding]; other site 351605001585 This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of tetrathionate reductase, subunit A, (TtrA); respiratory arsenate As(V) reductase, catalytic subunit (ArrA); and other related proteins; Region: MopB_CT_Tetrathionate_Arsenate-R; cd02780 351605001586 putative molybdopterin cofactor binding site; other site 351605001587 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 351605001588 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 351605001589 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 351605001590 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 351605001591 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 351605001592 4Fe-4S binding domain; Region: Fer4; pfam00037 351605001593 PBP superfamily domain; Region: PBP_like_2; cl17296 351605001594 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 351605001595 dimerization interface [polypeptide binding]; other site 351605001596 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 351605001597 dimer interface [polypeptide binding]; other site 351605001598 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 351605001599 putative CheW interface [polypeptide binding]; other site 351605001600 tetrathionate reductase subunit A; Provisional; Region: PRK14991 351605001601 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 351605001602 molybdopterin cofactor binding site; other site 351605001603 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 351605001604 This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of tetrathionate reductase, subunit A, (TtrA); respiratory arsenate As(V) reductase, catalytic subunit (ArrA); and other related proteins; Region: MopB_CT_Tetrathionate_Arsenate-R; cd02780 351605001605 putative molybdopterin cofactor binding site; other site 351605001606 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 351605001607 active site 351605001608 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 351605001609 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 351605001610 putative Zn2+ binding site [ion binding]; other site 351605001611 putative DNA binding site [nucleotide binding]; other site 351605001612 dimerization interface [polypeptide binding]; other site 351605001613 CO dehydrogenase/acetyl-CoA synthase gamma subunit (corrinoid Fe-S protein) [Energy production and conversion]; Region: CdhE; COG1456 351605001614 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 351605001615 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 351605001616 Predicted metallopeptidase [General function prediction only]; Region: COG4900 351605001617 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 351605001618 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 351605001619 glutamate racemase; Provisional; Region: PRK00865 351605001620 Sporulation and spore germination; Region: Germane; pfam10646 351605001621 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 351605001622 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 351605001623 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 351605001624 substrate binding pocket [chemical binding]; other site 351605001625 dimer interface [polypeptide binding]; other site 351605001626 inhibitor binding site; inhibition site 351605001627 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 351605001628 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 351605001629 B12 binding site [chemical binding]; other site 351605001630 cobalt ligand [ion binding]; other site 351605001631 transketolase; Reviewed; Region: PRK05899 351605001632 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 351605001633 TPP-binding site [chemical binding]; other site 351605001634 dimer interface [polypeptide binding]; other site 351605001635 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 351605001636 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 351605001637 PYR/PP interface [polypeptide binding]; other site 351605001638 dimer interface [polypeptide binding]; other site 351605001639 TPP binding site [chemical binding]; other site 351605001640 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 351605001641 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 351605001642 dimerization interface [polypeptide binding]; other site 351605001643 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 351605001644 dimer interface [polypeptide binding]; other site 351605001645 phosphorylation site [posttranslational modification] 351605001646 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 351605001647 ATP binding site [chemical binding]; other site 351605001648 Mg2+ binding site [ion binding]; other site 351605001649 G-X-G motif; other site 351605001650 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 351605001651 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605001652 active site 351605001653 phosphorylation site [posttranslational modification] 351605001654 intermolecular recognition site; other site 351605001655 dimerization interface [polypeptide binding]; other site 351605001656 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 351605001657 Walker A motif; other site 351605001658 ATP binding site [chemical binding]; other site 351605001659 Walker B motif; other site 351605001660 arginine finger; other site 351605001661 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 351605001662 Geobacter CxxxxCH...CXXCH motif (GSu_C4xC__C2xCH); Region: GSu_C4xC__C2xCH; pfam09698 351605001663 Nitrate/TMAO reductases, membrane-bound tetraheme cytochrome c subunit [Energy production and conversion]; Region: TorC; COG3005 351605001664 Nitrate/TMAO reductases, membrane-bound tetraheme cytochrome c subunit [Energy production and conversion]; Region: TorC; COG3005 351605001665 Nitrate/TMAO reductases, membrane-bound tetraheme cytochrome c subunit [Energy production and conversion]; Region: TorC; COG3005 351605001666 Geobacter CxxxxCH...CXXCH motif (GSu_C4xC__C2xCH); Region: GSu_C4xC__C2xCH; pfam09698 351605001667 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 351605001668 heme-binding residues [chemical binding]; other site 351605001669 translocation protein TolB; Provisional; Region: tolB; PRK03629 351605001670 translocation protein TolB; Provisional; Region: tolB; PRK00178 351605001671 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 351605001672 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 351605001673 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 351605001674 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 351605001675 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 351605001676 FeS/SAM binding site; other site 351605001677 tungsten cofactor oxidoreducase radical SAM maturase; Region: W_rSAM_matur; TIGR04317 351605001678 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 351605001679 FeS/SAM binding site; other site 351605001680 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 351605001681 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 351605001682 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 351605001683 FeS/SAM binding site; other site 351605001684 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 351605001685 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 351605001686 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 351605001687 putative active site [active] 351605001688 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 351605001689 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 351605001690 active site 351605001691 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 351605001692 Radical SAM superfamily; Region: Radical_SAM; pfam04055 351605001693 FeS/SAM binding site; other site 351605001694 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 351605001695 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 351605001696 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 351605001697 Alkylmercury lyase; Region: MerB; pfam03243 351605001698 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 351605001699 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 351605001700 B12 binding site [chemical binding]; other site 351605001701 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 351605001702 FeS/SAM binding site; other site 351605001703 Acyl-protein synthetase, LuxE; Region: LuxE; pfam04443 351605001704 magnesium-protoporphyrin IX monomethyl ester anaerobic oxidative cyclase; Region: BchE; TIGR02026 351605001705 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 351605001706 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 351605001707 FeS/SAM binding site; other site 351605001708 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 351605001709 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 351605001710 ligand binding site [chemical binding]; other site 351605001711 Geobacter sulfurreducens CxxxxCH...CXXCH domain; Region: GSu_C4xC__C2xCH; TIGR01904 351605001712 ResB-like family; Region: ResB; pfam05140 351605001713 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 351605001714 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 351605001715 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 351605001716 Uncharacterized conserved protein [Function unknown]; Region: COG2006 351605001717 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 351605001718 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 351605001719 active site 351605001720 phosphorylation site [posttranslational modification] 351605001721 intermolecular recognition site; other site 351605001722 dimerization interface [polypeptide binding]; other site 351605001723 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 351605001724 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 351605001725 HlyD family secretion protein; Region: HlyD_3; pfam13437 351605001726 multidrug efflux protein; Reviewed; Region: PRK09579 351605001727 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 351605001728 Transcriptional regulator [Transcription]; Region: IclR; COG1414 351605001729 Bacterial transcriptional regulator; Region: IclR; pfam01614 351605001730 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 351605001731 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 351605001732 Sporulation related domain; Region: SPOR; pfam05036 351605001733 Sporulation related domain; Region: SPOR; pfam05036 351605001734 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 351605001735 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 351605001736 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 351605001737 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 351605001738 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 351605001739 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 351605001740 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 351605001741 dimer interface [polypeptide binding]; other site 351605001742 phosphorylation site [posttranslational modification] 351605001743 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 351605001744 ATP binding site [chemical binding]; other site 351605001745 Mg2+ binding site [ion binding]; other site 351605001746 G-X-G motif; other site 351605001747 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 351605001748 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 351605001749 putative substrate-binding site; other site 351605001750 nickel binding site [ion binding]; other site 351605001751 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 351605001752 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 351605001753 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 351605001754 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 351605001755 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 351605001756 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 351605001757 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 351605001758 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 351605001759 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 351605001760 ATP binding site [chemical binding]; other site 351605001761 putative Mg++ binding site [ion binding]; other site 351605001762 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 351605001763 Methyltransferase domain; Region: Methyltransf_26; pfam13659 351605001764 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 351605001765 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 351605001766 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 351605001767 SIR2 superfamily 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; cl00195 351605001768 GAF domain; Region: GAF; pfam01590 351605001769 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 351605001770 GAF domain; Region: GAF; pfam01590 351605001771 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 351605001772 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 351605001773 Walker A motif; other site 351605001774 ATP binding site [chemical binding]; other site 351605001775 Walker B motif; other site 351605001776 arginine finger; other site 351605001777 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 351605001778 putative hydrolase; Provisional; Region: PRK02113 351605001779 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 351605001780 Predicted RNA binding protein (dsRBD-like fold), HicA family [General function prediction only]; Region: COG1724 351605001781 KilA-N domain; Region: KilA-N; pfam04383 351605001782 ORF6N domain; Region: ORF6N; pfam10543 351605001783 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 351605001784 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 351605001785 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 351605001786 Walker A motif; other site 351605001787 ATP binding site [chemical binding]; other site 351605001788 Walker B motif; other site 351605001789 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 351605001790 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 351605001791 Integrase core domain; Region: rve; pfam00665 351605001792 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 351605001793 Putative transposase; Region: Y2_Tnp; pfam04986 351605001794 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 351605001795 Transposase; Region: DDE_Tnp_ISL3; pfam01610 351605001796 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 351605001797 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5304 351605001798 Protein of unknown function (DUF3795); Region: DUF3795; pfam12675 351605001799 Predicted transcriptional regulator [Transcription]; Region: COG2944 351605001800 Protein of unknown function, DUF393; Region: DUF393; pfam04134 351605001801 Uncharacterized conserved protein [Function unknown]; Region: COG1359 351605001802 RmuC family; Region: RmuC; pfam02646 351605001803 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 351605001804 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 351605001805 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 351605001806 Geobacter CxxxxCH...CXXCH motif (GSu_C4xC__C2xCH); Region: GSu_C4xC__C2xCH; pfam09698 351605001807 Geobacter CxxxxCH...CXXCH motif (GSu_C4xC__C2xCH); Region: GSu_C4xC__C2xCH; pfam09698 351605001808 Geobacter CxxxxCH...CXXCH motif (GSu_C4xC__C2xCH); Region: GSu_C4xC__C2xCH; pfam09698 351605001809 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 351605001810 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 351605001811 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 351605001812 Interdomain contacts; other site 351605001813 Cytokine receptor motif; other site 351605001814 Domain of unknown function (DUF2341); Region: DUF2341; pfam10102 351605001815 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 351605001816 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 351605001817 Interdomain contacts; other site 351605001818 Domain of unknown function (DUF2341); Region: DUF2341; pfam10102 351605001819 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 351605001820 Domain of unknown function (DUF2341); Region: DUF2341; pfam10102 351605001821 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 351605001822 Interdomain contacts; other site 351605001823 Cytokine receptor motif; other site 351605001824 Domain of unknown function (DUF2341); Region: DUF2341; pfam10102 351605001825 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 351605001826 Interdomain contacts; other site 351605001827 Cytokine receptor motif; other site 351605001828 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 351605001829 Domain of unknown function (DUF2341); Region: DUF2341; pfam10102 351605001830 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 351605001831 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 351605001832 Interdomain contacts; other site 351605001833 Cytokine receptor motif; other site 351605001834 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 351605001835 Right handed beta helix region; Region: Beta_helix; pfam13229 351605001836 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 351605001837 PilZ domain; Region: PilZ; pfam07238 351605001838 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 351605001839 AAA domain; Region: AAA_30; pfam13604 351605001840 Family description; Region: UvrD_C_2; pfam13538 351605001841 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 351605001842 Family description; Region: UvrD_C_2; pfam13538 351605001843 Protein of unknown function (DUF497); Region: DUF497; pfam04365 351605001844 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 351605001845 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 351605001846 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 351605001847 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 351605001848 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 351605001849 active site 351605001850 NTP binding site [chemical binding]; other site 351605001851 metal binding triad [ion binding]; metal-binding site 351605001852 antibiotic binding site [chemical binding]; other site 351605001853 HEPN domain; Region: HEPN; pfam05168 351605001854 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 351605001855 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 351605001856 RES domain; Region: RES; smart00953 351605001857 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 351605001858 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 351605001859 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 351605001860 non-specific DNA binding site [nucleotide binding]; other site 351605001861 salt bridge; other site 351605001862 sequence-specific DNA binding site [nucleotide binding]; other site 351605001863 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 351605001864 ATP binding site [chemical binding]; other site 351605001865 putative Mg++ binding site [ion binding]; other site 351605001866 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 351605001867 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 351605001868 nucleotide binding region [chemical binding]; other site 351605001869 ATP-binding site [chemical binding]; other site 351605001870 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 351605001871 DNA methylase; Region: N6_N4_Mtase; pfam01555 351605001872 DNA methylase; Region: N6_N4_Mtase; cl17433 351605001873 DEAD-like helicases superfamily; Region: DEXDc; smart00487 351605001874 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 351605001875 ATP binding site [chemical binding]; other site 351605001876 putative Mg++ binding site [ion binding]; other site 351605001877 PIN domains of VapC and Smg6 ribonucleases, ribosome assembly factor NOB1, Archaeoglobus fulgidus AF0591 protein and homologs; Region: PIN_VapC-Smg6-like; cd09855 351605001878 putative active site [active] 351605001879 Fic/DOC family; Region: Fic; pfam02661 351605001880 SNF2 Helicase protein; Region: DUF3670; pfam12419 351605001881 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 351605001882 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 351605001883 ATP binding site [chemical binding]; other site 351605001884 putative Mg++ binding site [ion binding]; other site 351605001885 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 351605001886 nucleotide binding region [chemical binding]; other site 351605001887 ATP-binding site [chemical binding]; other site 351605001888 AAA domain; Region: AAA_22; pfam13401 351605001889 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 351605001890 Walker A motif; other site 351605001891 ATP binding site [chemical binding]; other site 351605001892 Walker B motif; other site 351605001893 arginine finger; other site 351605001894 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 351605001895 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 351605001896 YcfA-like protein; Region: YcfA; cl00752 351605001897 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 351605001898 putative hydrophobic ligand binding site [chemical binding]; other site 351605001899 Uncharacterized protein family (UPF0158); Region: UPF0158; pfam03682 351605001900 Uncharacterized conserved protein [Function unknown]; Region: COG4279 351605001901 SWIM zinc finger; Region: SWIM; pfam04434 351605001902 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 351605001903 non-specific DNA binding site [nucleotide binding]; other site 351605001904 salt bridge; other site 351605001905 sequence-specific DNA binding site [nucleotide binding]; other site 351605001906 aminodeoxychorismate synthase; Provisional; Region: PRK07508 351605001907 chorismate binding enzyme; Region: Chorismate_bind; cl10555 351605001908 hypothetical protein; Provisional; Region: PRK07546 351605001909 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 351605001910 substrate-cofactor binding pocket; other site 351605001911 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351605001912 homodimer interface [polypeptide binding]; other site 351605001913 catalytic residue [active] 351605001914 Protein of unknown function (DUF2400); Region: DUF2400; pfam09674 351605001915 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 351605001916 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 351605001917 putative active site [active] 351605001918 dimerization interface [polypeptide binding]; other site 351605001919 putative tRNAtyr binding site [nucleotide binding]; other site 351605001920 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 351605001921 putative ADP-ribose binding site [chemical binding]; other site 351605001922 putative active site [active] 351605001923 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 351605001924 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 351605001925 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 351605001926 dimerization interface [polypeptide binding]; other site 351605001927 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 351605001928 dimer interface [polypeptide binding]; other site 351605001929 putative CheW interface [polypeptide binding]; other site 351605001930 Predicted transcriptional regulator [Transcription]; Region: COG4190 351605001931 MarR family; Region: MarR_2; cl17246 351605001932 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 351605001933 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 351605001934 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 351605001935 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 351605001936 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 351605001937 carbon-monoxide dehydrogenase, catalytic subunit; Region: CO_DH_cata; TIGR01702 351605001938 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 351605001939 ACS interaction site; other site 351605001940 CODH interaction site; other site 351605001941 cubane metal cluster (B-cluster) [ion binding]; other site 351605001942 Ni-Fe-S cluster (C-cluster) [ion binding]; other site 351605001943 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 351605001944 PAS domain; Region: PAS_9; pfam13426 351605001945 putative active site [active] 351605001946 heme pocket [chemical binding]; other site 351605001947 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 351605001948 LytTr DNA-binding domain; Region: LytTR; smart00850 351605001949 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 351605001950 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 351605001951 PYR/PP interface [polypeptide binding]; other site 351605001952 dimer interface [polypeptide binding]; other site 351605001953 TPP binding site [chemical binding]; other site 351605001954 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 351605001955 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 351605001956 TPP-binding site [chemical binding]; other site 351605001957 dimer interface [polypeptide binding]; other site 351605001958 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 351605001959 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 351605001960 DNA binding residues [nucleotide binding] 351605001961 dimerization interface [polypeptide binding]; other site 351605001962 Cupin domain; Region: Cupin_2; pfam07883 351605001963 Uncharacterized conserved protein [Function unknown]; Region: COG1284 351605001964 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 351605001965 Protein of unknown function (DUF3124); Region: DUF3124; pfam11322 351605001966 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 351605001967 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 351605001968 TIGR04076 family protein; Region: TIGR04076 351605001969 hypothetical protein; Provisional; Region: PRK08317 351605001970 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 351605001971 S-adenosylmethionine binding site [chemical binding]; other site 351605001972 PIN domain; Region: PIN_3; cl17397 351605001973 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 351605001974 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 351605001975 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 351605001976 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 351605001977 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 351605001978 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 351605001979 Domain of unknown function DUF20; Region: UPF0118; pfam01594 351605001980 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 351605001981 Domain of unknown function DUF20; Region: UPF0118; pfam01594 351605001982 Uncharacterized protein family (UPF0158); Region: UPF0158; pfam03682 351605001983 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 351605001984 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 351605001985 putative active site [active] 351605001986 putative metal binding site [ion binding]; other site 351605001987 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 351605001988 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 351605001989 Rrf2 family protein; Region: rrf2_super; TIGR00738 351605001990 Transcriptional regulator; Region: Rrf2; pfam02082 351605001991 YtxH-like protein; Region: YtxH; pfam12732 351605001992 Bacterial protein of unknown function (DUF948); Region: DUF948; pfam06103 351605001993 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 351605001994 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 351605001995 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 351605001996 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 351605001997 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 351605001998 putative active site [active] 351605001999 putative NTP binding site [chemical binding]; other site 351605002000 putative nucleic acid binding site [nucleotide binding]; other site 351605002001 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 351605002002 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 351605002003 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 351605002004 Domain of unknown function (DUF2088); Region: DUF2088; pfam09861 351605002005 FAD binding domain; Region: FAD_binding_4; pfam01565 351605002006 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 351605002007 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 351605002008 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 351605002009 Cysteine-rich domain; Region: CCG; pfam02754 351605002010 Cysteine-rich domain; Region: CCG; pfam02754 351605002011 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 351605002012 sequence-specific DNA binding site [nucleotide binding]; other site 351605002013 salt bridge; other site 351605002014 Cupin domain; Region: Cupin_2; pfam07883 351605002015 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 351605002016 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 351605002017 Malonate decarboxylase gamma subunit (MdcE); Region: MdcE; cl17835 351605002018 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 351605002019 ATP-grasp domain; Region: ATP-grasp_4; cl17255 351605002020 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 351605002021 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 351605002022 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 351605002023 carboxyltransferase (CT) interaction site; other site 351605002024 biotinylation site [posttranslational modification]; other site 351605002025 glycyl-tRNA synthetase, dimeric type; Region: glyS_dimeric; TIGR00389 351605002026 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, isobutyryl-CoA mutase (ICM)-like subfamily; contains archaeal and bacterial proteins similar to the large subunit of Streptomyces cinnamonensis coenzyme B12-dependent ICM. ICM...; Region: MM_CoA_mutase_ICM_like; cd03680 351605002027 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 351605002028 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 351605002029 dimer interface [polypeptide binding]; other site 351605002030 substrate binding site [chemical binding]; other site 351605002031 metal binding site [ion binding]; metal-binding site 351605002032 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 351605002033 active site 351605002034 NTP binding site [chemical binding]; other site 351605002035 metal binding triad [ion binding]; metal-binding site 351605002036 antibiotic binding site [chemical binding]; other site 351605002037 Protein of unknown function DUF86; Region: DUF86; pfam01934 351605002038 Family description; Region: VCBS; pfam13517 351605002039 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12292 351605002040 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 351605002041 dimer interface [polypeptide binding]; other site 351605002042 motif 1; other site 351605002043 active site 351605002044 motif 2; other site 351605002045 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 351605002046 anticodon binding site; other site 351605002047 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 351605002048 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 351605002049 GDP-binding site [chemical binding]; other site 351605002050 ACT binding site; other site 351605002051 IMP binding site; other site 351605002052 hybrid cluster protein; Provisional; Region: PRK05290 351605002053 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 351605002054 ACS interaction site; other site 351605002055 CODH interaction site; other site 351605002056 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 351605002057 hybrid metal cluster; other site 351605002058 cytochrome c nitrate reductase, small subunit; Region: cytochr_NrfH; TIGR03153 351605002059 Cytochrome c552; Region: Cytochrom_C552; pfam02335 351605002060 HPP family; Region: HPP; pfam04982 351605002061 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 351605002062 CHASE2 is an extracellular sensory domain, which is present in various classes of transmembrane receptors that are parts of signal transduction pathways in bacteria; Region: CHASE2; smart01080 351605002063 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 351605002064 cyclase homology domain; Region: CHD; cd07302 351605002065 nucleotidyl binding site; other site 351605002066 metal binding site [ion binding]; metal-binding site 351605002067 dimer interface [polypeptide binding]; other site 351605002068 Src Homology 3 domain superfamily; Region: SH3; cl17036 351605002069 peptide ligand binding site [polypeptide binding]; other site 351605002070 Peptidase family M48; Region: Peptidase_M48; pfam01435 351605002071 Peptidase family M48; Region: Peptidase_M48; pfam01435 351605002072 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 351605002073 Cytochrome c bacterial; Region: Cytochrome_cB; pfam11783 351605002074 TIGR03545 family protein; Region: TIGR03545 351605002075 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 351605002076 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 351605002077 GspL periplasmic domain; Region: GspL_C; cl14909 351605002078 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 351605002079 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 351605002080 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 351605002081 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 351605002082 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 351605002083 type II secretion system protein F; Region: GspF; TIGR02120 351605002084 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 351605002085 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 351605002086 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 351605002087 type II secretion system protein E; Region: type_II_gspE; TIGR02533 351605002088 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 351605002089 Walker A motif; other site 351605002090 ATP binding site [chemical binding]; other site 351605002091 Walker B motif; other site 351605002092 type II secretion system protein D; Region: type_II_gspD; TIGR02517 351605002093 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 351605002094 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 351605002095 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 351605002096 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 351605002097 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 351605002098 protein binding site [polypeptide binding]; other site 351605002099 futalosine nucleosidase; Region: fut_nucase; TIGR03664 351605002100 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG2107 351605002101 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 351605002102 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 351605002103 PAS domain; Region: PAS_9; pfam13426 351605002104 putative active site [active] 351605002105 heme pocket [chemical binding]; other site 351605002106 PAS domain S-box; Region: sensory_box; TIGR00229 351605002107 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 351605002108 putative active site [active] 351605002109 heme pocket [chemical binding]; other site 351605002110 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 351605002111 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 351605002112 putative active site [active] 351605002113 heme pocket [chemical binding]; other site 351605002114 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 351605002115 putative active site [active] 351605002116 heme pocket [chemical binding]; other site 351605002117 PAS domain; Region: PAS; smart00091 351605002118 PAS domain; Region: PAS_9; pfam13426 351605002119 putative active site [active] 351605002120 heme pocket [chemical binding]; other site 351605002121 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 351605002122 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 351605002123 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 351605002124 TPR motif; other site 351605002125 Tetratricopeptide repeat; Region: TPR_16; pfam13432 351605002126 binding surface 351605002127 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 351605002128 binding surface 351605002129 TPR motif; other site 351605002130 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 351605002131 TPR motif; other site 351605002132 binding surface 351605002133 TPR repeat; Region: TPR_11; pfam13414 351605002134 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 351605002135 binding surface 351605002136 TPR motif; other site 351605002137 TPR repeat; Region: TPR_11; pfam13414 351605002138 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 351605002139 TPR motif; other site 351605002140 binding surface 351605002141 TPR repeat; Region: TPR_11; pfam13414 351605002142 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 351605002143 binding surface 351605002144 TPR motif; other site 351605002145 TPR repeat; Region: TPR_11; pfam13414 351605002146 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 351605002147 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 351605002148 putative dimer interface [polypeptide binding]; other site 351605002149 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 351605002150 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 351605002151 Walker A motif; other site 351605002152 ATP binding site [chemical binding]; other site 351605002153 Walker B motif; other site 351605002154 arginine finger; other site 351605002155 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 351605002156 thiamine monophosphate kinase; Provisional; Region: PRK05731 351605002157 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 351605002158 ATP binding site [chemical binding]; other site 351605002159 dimerization interface [polypeptide binding]; other site 351605002160 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 351605002161 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 351605002162 Transposase; Region: DDE_Tnp_ISL3; pfam01610 351605002163 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 351605002164 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 351605002165 acetaldehyde dehydrogenase; Validated; Region: PRK08300 351605002166 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 351605002167 binding surface 351605002168 TPR motif; other site 351605002169 TPR repeat; Region: TPR_11; pfam13414 351605002170 TPR repeat; Region: TPR_11; pfam13414 351605002171 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 351605002172 binding surface 351605002173 TPR motif; other site 351605002174 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 351605002175 catalytic center binding site [active] 351605002176 ATP binding site [chemical binding]; other site 351605002177 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 351605002178 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 351605002179 active site 351605002180 intersubunit interactions; other site 351605002181 catalytic residue [active] 351605002182 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 351605002183 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 351605002184 Cytochrome c; Region: Cytochrom_C; pfam00034 351605002185 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 351605002186 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 351605002187 bifunctional homocysteine S-methyltransferase/5,10-methylenetetrahydrofolate reductase protein; Reviewed; Region: PRK08645 351605002188 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 351605002189 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 351605002190 FAD binding site [chemical binding]; other site 351605002191 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 351605002192 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 351605002193 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 351605002194 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 351605002195 Ligand Binding Site [chemical binding]; other site 351605002196 4Fe-4S binding domain; Region: Fer4_5; pfam12801 351605002197 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 351605002198 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 351605002199 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 351605002200 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 351605002201 oligomeric interface; other site 351605002202 putative active site [active] 351605002203 homodimer interface [polypeptide binding]; other site 351605002204 prevent-host-death family protein; Region: phd_fam; TIGR01552 351605002205 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 351605002206 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 351605002207 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 351605002208 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 351605002209 FeS/SAM binding site; other site 351605002210 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 351605002211 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 351605002212 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 351605002213 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 351605002214 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 351605002215 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 351605002216 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 351605002217 CheC-like family; Region: CheC; pfam04509 351605002218 Chemotaxis phosphatase CheX; Region: CheX; cl15816 351605002219 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 351605002220 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 351605002221 putative binding surface; other site 351605002222 active site 351605002223 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 351605002224 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 351605002225 ATP binding site [chemical binding]; other site 351605002226 Mg2+ binding site [ion binding]; other site 351605002227 G-X-G motif; other site 351605002228 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 351605002229 Response regulator receiver domain; Region: Response_reg; pfam00072 351605002230 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605002231 active site 351605002232 phosphorylation site [posttranslational modification] 351605002233 intermolecular recognition site; other site 351605002234 dimerization interface [polypeptide binding]; other site 351605002235 CheW-like domain; Region: CheW; pfam01584 351605002236 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 351605002237 HAMP domain; Region: HAMP; pfam00672 351605002238 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 351605002239 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 351605002240 dimer interface [polypeptide binding]; other site 351605002241 putative CheW interface [polypeptide binding]; other site 351605002242 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 351605002243 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 351605002244 S-adenosylmethionine binding site [chemical binding]; other site 351605002245 PilZ domain; Region: PilZ; cl01260 351605002246 BON domain; Region: BON; pfam04972 351605002247 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 351605002248 BON domain; Region: BON; pfam04972 351605002249 BON domain; Region: BON; pfam04972 351605002250 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 351605002251 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 351605002252 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351605002253 homodimer interface [polypeptide binding]; other site 351605002254 catalytic residue [active] 351605002255 cupin fold metalloprotein, WbuC family; Region: cupin_WbuC; TIGR04366 351605002256 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 351605002257 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 351605002258 active site 351605002259 acetyl-CoA acetyltransferase; Provisional; Region: PRK06064 351605002260 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 351605002261 active site 351605002262 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]; Region: COG3357 351605002263 Domain of unknown function (DUF4379); Region: DUF4379; pfam14311 351605002264 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351605002265 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351605002266 metal binding site [ion binding]; metal-binding site 351605002267 active site 351605002268 I-site; other site 351605002269 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 351605002270 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 351605002271 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 351605002272 dimer interface [polypeptide binding]; other site 351605002273 phosphorylation site [posttranslational modification] 351605002274 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 351605002275 ATP binding site [chemical binding]; other site 351605002276 Mg2+ binding site [ion binding]; other site 351605002277 G-X-G motif; other site 351605002278 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 351605002279 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605002280 active site 351605002281 phosphorylation site [posttranslational modification] 351605002282 intermolecular recognition site; other site 351605002283 dimerization interface [polypeptide binding]; other site 351605002284 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 351605002285 DNA binding residues [nucleotide binding] 351605002286 dimerization interface [polypeptide binding]; other site 351605002287 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 351605002288 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 351605002289 Interdomain contacts; other site 351605002290 Cytokine receptor motif; other site 351605002291 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 351605002292 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 351605002293 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 351605002294 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 351605002295 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 351605002296 Histidine kinase; Region: HisKA_3; pfam07730 351605002297 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 351605002298 ATP binding site [chemical binding]; other site 351605002299 Mg2+ binding site [ion binding]; other site 351605002300 G-X-G motif; other site 351605002301 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 351605002302 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605002303 active site 351605002304 phosphorylation site [posttranslational modification] 351605002305 intermolecular recognition site; other site 351605002306 dimerization interface [polypeptide binding]; other site 351605002307 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 351605002308 DNA binding residues [nucleotide binding] 351605002309 dimerization interface [polypeptide binding]; other site 351605002310 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 351605002311 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 351605002312 Coenzyme A binding pocket [chemical binding]; other site 351605002313 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 351605002314 S-adenosylmethionine binding site [chemical binding]; other site 351605002315 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 351605002316 S-adenosylmethionine binding site [chemical binding]; other site 351605002317 Phage Tail Collar Domain; Region: Collar; pfam07484 351605002318 Phage Tail Collar Domain; Region: Collar; pfam07484 351605002319 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 351605002320 sugar binding site [chemical binding]; other site 351605002321 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 351605002322 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 351605002323 IPT domain of Plexins and Cell Surface Receptors (PCSR) and related proteins . This subgroup contains IPT domains of plexins, receptors, like the plasminogen-related growth factor receptors, the hepatocyte growth factor-scatter factors, and the...; Region: IPT_PCSR; cd00603 351605002324 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 351605002325 Interdomain contacts; other site 351605002326 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 351605002327 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605002328 active site 351605002329 phosphorylation site [posttranslational modification] 351605002330 intermolecular recognition site; other site 351605002331 dimerization interface [polypeptide binding]; other site 351605002332 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 351605002333 DNA binding residues [nucleotide binding] 351605002334 dimerization interface [polypeptide binding]; other site 351605002335 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 351605002336 Histidine kinase; Region: HisKA_3; pfam07730 351605002337 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 351605002338 ATP binding site [chemical binding]; other site 351605002339 Mg2+ binding site [ion binding]; other site 351605002340 G-X-G motif; other site 351605002341 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 351605002342 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 351605002343 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 351605002344 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 351605002345 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 351605002346 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 351605002347 Putative transposase; Region: Y2_Tnp; pfam04986 351605002348 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 351605002349 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]; Region: COG3947 351605002350 Hemerythrin-like domain; Region: Hr-like; cd12108 351605002351 Fe binding site [ion binding]; other site 351605002352 nickel responsive regulator; Provisional; Region: PRK04460 351605002353 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 351605002354 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 351605002355 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 351605002356 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 351605002357 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 351605002358 CobN/Magnesium Chelatase; Region: CobN-Mg_chel; pfam02514 351605002359 Uncharacterized conserved protein (DUF2149); Region: DUF2149; pfam09919 351605002360 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 351605002361 Predicted transporter (DUF2162); Region: DUF2162; pfam09930 351605002362 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 351605002363 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 351605002364 N-terminal plug; other site 351605002365 ligand-binding site [chemical binding]; other site 351605002366 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 351605002367 cobalt transport protein CbiM; Validated; Region: PRK06265 351605002368 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 351605002369 PDGLE domain; Region: PDGLE; pfam13190 351605002370 Sel1-like repeats; Region: SEL1; smart00671 351605002371 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 351605002372 Sel1-like repeats; Region: SEL1; smart00671 351605002373 Sel1-like repeats; Region: SEL1; smart00671 351605002374 Sel1-like repeats; Region: SEL1; smart00671 351605002375 Sel1-like repeats; Region: SEL1; smart00671 351605002376 Sel1-like repeats; Region: SEL1; smart00671 351605002377 Sel1-like repeats; Region: SEL1; smart00671 351605002378 Sel1-like repeats; Region: SEL1; smart00671 351605002379 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 351605002380 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 351605002381 Cupin domain; Region: Cupin_2; pfam07883 351605002382 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 351605002383 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 351605002384 Methyltransferase domain; Region: Methyltransf_31; pfam13847 351605002385 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 351605002386 S-adenosylmethionine binding site [chemical binding]; other site 351605002387 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4627 351605002388 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 351605002389 non-specific DNA binding site [nucleotide binding]; other site 351605002390 salt bridge; other site 351605002391 sequence-specific DNA binding site [nucleotide binding]; other site 351605002392 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 351605002393 Protein of unknown function (DUF497); Region: DUF497; pfam04365 351605002394 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 351605002395 Major Facilitator Superfamily; Region: MFS_1; pfam07690 351605002396 putative substrate translocation pore; other site 351605002397 GTPase RsgA; Reviewed; Region: PRK01889 351605002398 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 351605002399 RNA binding site [nucleotide binding]; other site 351605002400 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 351605002401 GTPase/Zn-binding domain interface [polypeptide binding]; other site 351605002402 GTP/Mg2+ binding site [chemical binding]; other site 351605002403 G4 box; other site 351605002404 G5 box; other site 351605002405 G1 box; other site 351605002406 Switch I region; other site 351605002407 G2 box; other site 351605002408 G3 box; other site 351605002409 Switch II region; other site 351605002410 Maf_Ham1. Maf, a nucleotide binding protein, has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea. A Ham1-related protein from Methanococcus jannaschii is a novel NTPase that has been shown to hydrolyze nonstandard...; Region: Maf_Ham1; cl00276 351605002411 Transposase IS200 like; Region: Y1_Tnp; pfam01797 351605002412 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 351605002413 DnaA box-binding interface [nucleotide binding]; other site 351605002414 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 351605002415 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 351605002416 FeS/SAM binding site; other site 351605002417 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 351605002418 Bacterial Ig-like domain; Region: Big_5; pfam13205 351605002419 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 351605002420 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 351605002421 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 351605002422 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 351605002423 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 351605002424 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 351605002425 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 351605002426 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 351605002427 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 351605002428 Type II secretory pathway, pullulanase PulA and related glycosidases [Carbohydrate transport and metabolism]; Region: PulA; COG1523 351605002429 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 351605002430 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 351605002431 active site 351605002432 catalytic site [active] 351605002433 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 351605002434 Mechanosensitive ion channel; Region: MS_channel; pfam00924 351605002435 Paraquat-inducible protein A; Region: PqiA; pfam04403 351605002436 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 351605002437 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 351605002438 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 351605002439 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 351605002440 Protein export membrane protein; Region: SecD_SecF; cl14618 351605002441 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 351605002442 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 351605002443 HlyD family secretion protein; Region: HlyD_3; pfam13437 351605002444 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 351605002445 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 351605002446 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 351605002447 active site 351605002448 catalytic residues [active] 351605002449 metal binding site [ion binding]; metal-binding site 351605002450 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 351605002451 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 351605002452 putative active site [active] 351605002453 substrate binding site [chemical binding]; other site 351605002454 putative cosubstrate binding site; other site 351605002455 catalytic site [active] 351605002456 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 351605002457 substrate binding site [chemical binding]; other site 351605002458 Protein of unknown function DUF116; Region: DUF116; pfam01976 351605002459 Putative catalytic NodB homology domain of uncharacterized protein RC0012 from Rickettsia conorii and its bacterial homologs; Region: CE4_RC0012_like; cd10963 351605002460 NodB motif; other site 351605002461 putative active site [active] 351605002462 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 351605002463 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 351605002464 dimer interface [polypeptide binding]; other site 351605002465 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351605002466 catalytic residue [active] 351605002467 hypothetical protein; Provisional; Region: PRK09272 351605002468 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 351605002469 Transposase IS200 like; Region: Y1_Tnp; cl00848 351605002470 helicase Cas3; Provisional; Region: PRK09694 351605002471 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 351605002472 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 351605002473 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cd09729 351605002474 CRISPR/Cas system-associated protein Cse2; Region: Cse2_I-E; cd09731 351605002475 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cd09727 351605002476 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-E; cl09608 351605002477 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 351605002478 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-E; cd09645 351605002479 PemK-like protein; Region: PemK; pfam02452 351605002480 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 351605002481 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 351605002482 four helix bundle protein; Region: TIGR02436 351605002483 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-E; cd09719 351605002484 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 351605002485 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I-E; cd09755 351605002486 mercuric reductase; Region: MerA; TIGR02053 351605002487 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 351605002488 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 351605002489 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 351605002490 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 351605002491 TPP-binding site [chemical binding]; other site 351605002492 dimer interface [polypeptide binding]; other site 351605002493 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 351605002494 PYR/PP interface [polypeptide binding]; other site 351605002495 dimer interface [polypeptide binding]; other site 351605002496 TPP binding site [chemical binding]; other site 351605002497 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 351605002498 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 351605002499 HicB family; Region: HicB; pfam05534 351605002500 YcfA-like protein; Region: YcfA; cl00752 351605002501 Transposase IS200 like; Region: Y1_Tnp; cl00848 351605002502 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; cl07055 351605002503 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 351605002504 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 351605002505 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 351605002506 putative NTP binding site [chemical binding]; other site 351605002507 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 351605002508 dimer interface [polypeptide binding]; other site 351605002509 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 351605002510 Putative transposase; Region: Y2_Tnp; pfam04986 351605002511 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 351605002512 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 351605002513 ligand binding site [chemical binding]; other site 351605002514 flexible hinge region; other site 351605002515 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 351605002516 non-specific DNA interactions [nucleotide binding]; other site 351605002517 DNA binding site [nucleotide binding] 351605002518 sequence specific DNA binding site [nucleotide binding]; other site 351605002519 putative cAMP binding site [chemical binding]; other site 351605002520 Protein of unknown function (DUF523); Region: DUF523; pfam04463 351605002521 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 351605002522 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 351605002523 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 351605002524 dimer interface [polypeptide binding]; other site 351605002525 phosphorylation site [posttranslational modification] 351605002526 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 351605002527 ATP binding site [chemical binding]; other site 351605002528 Mg2+ binding site [ion binding]; other site 351605002529 G-X-G motif; other site 351605002530 Response regulator receiver domain; Region: Response_reg; pfam00072 351605002531 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605002532 active site 351605002533 phosphorylation site [posttranslational modification] 351605002534 intermolecular recognition site; other site 351605002535 dimerization interface [polypeptide binding]; other site 351605002536 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 351605002537 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 351605002538 active site 351605002539 Substrate binding site; other site 351605002540 Mg++ binding site; other site 351605002541 Left-handed parallel beta-Helix (LbH) domain of a group of proteins with similarity to glucose-1-phosphate adenylyltransferase: Included in this family are glucose-1-phosphate adenylyltransferase, mannose-1-phosphate guanylyltransferase, and the...; Region: LbH_G1P_AT_C_like; cd03356 351605002542 GTP-mannose-1-phosphate guanyltransferase (MPG1 transferase), also known as GDP-mannose pyrophosphorylase, is a bifunctional enzyme with both phosphomannose isomerase (PMI) activity and GDP-mannose phosphorylase (GMP) activity. The protein contains an...; Region: MPG1_transferase; cd05805 351605002543 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 351605002544 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 351605002545 N-terminal catalytic domain of thermoactive amylopullulanases; glycoside hydrolase family 57 (GH57); Region: GH57N_APU; cd10796 351605002546 putative active site [active] 351605002547 catalytic site [active] 351605002548 ADP-glucose phosphorylase; Region: PLN02643 351605002549 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 351605002550 dimer interface [polypeptide binding]; other site 351605002551 active site 351605002552 glycogen synthase; Provisional; Region: glgA; PRK00654 351605002553 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 351605002554 ADP-binding pocket [chemical binding]; other site 351605002555 homodimer interface [polypeptide binding]; other site 351605002556 cytochrome c nitrate reductase, small subunit; Region: cytochr_NrfH; TIGR03153 351605002557 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 351605002558 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 351605002559 Predicted membrane protein [Function unknown]; Region: COG4881 351605002560 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 351605002561 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 351605002562 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 351605002563 catalytic residue [active] 351605002564 Uncharacterized archaeal Zn-finger protein [General function prediction only]; Region: COG1326 351605002565 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 351605002566 Rubredoxin; Region: Rubredoxin; pfam00301 351605002567 iron binding site [ion binding]; other site 351605002568 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_GTP; cd00819 351605002569 active site 351605002570 substrate-binding site [chemical binding]; other site 351605002571 metal-binding site [ion binding] 351605002572 GTP binding site [chemical binding]; other site 351605002573 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 351605002574 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 351605002575 active site 351605002576 substrate-binding site [chemical binding]; other site 351605002577 metal-binding site [ion binding] 351605002578 ATP binding site [chemical binding]; other site 351605002579 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 351605002580 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 351605002581 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 351605002582 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 351605002583 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 351605002584 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 351605002585 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 351605002586 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 351605002587 putative active site [active] 351605002588 heme pocket [chemical binding]; other site 351605002589 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 351605002590 dimer interface [polypeptide binding]; other site 351605002591 phosphorylation site [posttranslational modification] 351605002592 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 351605002593 ATP binding site [chemical binding]; other site 351605002594 Mg2+ binding site [ion binding]; other site 351605002595 G-X-G motif; other site 351605002596 Response regulator receiver domain; Region: Response_reg; pfam00072 351605002597 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605002598 active site 351605002599 phosphorylation site [posttranslational modification] 351605002600 intermolecular recognition site; other site 351605002601 dimerization interface [polypeptide binding]; other site 351605002602 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 351605002603 PAS domain; Region: PAS_9; pfam13426 351605002604 putative active site [active] 351605002605 heme pocket [chemical binding]; other site 351605002606 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351605002607 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351605002608 metal binding site [ion binding]; metal-binding site 351605002609 active site 351605002610 I-site; other site 351605002611 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 351605002612 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 351605002613 sequence-specific DNA binding site [nucleotide binding]; other site 351605002614 salt bridge; other site 351605002615 Cupin domain; Region: Cupin_2; pfam07883 351605002616 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 351605002617 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 351605002618 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 351605002619 protein binding site [polypeptide binding]; other site 351605002620 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 351605002621 protein binding site [polypeptide binding]; other site 351605002622 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 351605002623 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 351605002624 RNA binding surface [nucleotide binding]; other site 351605002625 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 351605002626 active site 351605002627 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 351605002628 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 351605002629 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 351605002630 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 351605002631 DDE superfamily endonuclease; Region: DDE_5; pfam13546 351605002632 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 351605002633 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 351605002634 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 351605002635 hydrogenase 4 subunit F; Validated; Region: PRK06458 351605002636 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 351605002637 Hydrogenase 4 membrane component (E) [Energy production and conversion]; Region: HyfE; cl17899 351605002638 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 351605002639 hydrogenase 4 subunit B; Validated; Region: PRK06521 351605002640 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 351605002641 Helix-turn-helix domain; Region: HTH_17; pfam12728 351605002642 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 351605002643 active site 351605002644 phosphorylation site [posttranslational modification] 351605002645 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 351605002646 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 351605002647 Walker A/P-loop; other site 351605002648 ATP binding site [chemical binding]; other site 351605002649 Q-loop/lid; other site 351605002650 ABC transporter signature motif; other site 351605002651 Walker B; other site 351605002652 D-loop; other site 351605002653 H-loop/switch region; other site 351605002654 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 351605002655 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 351605002656 FtsX-like permease family; Region: FtsX; pfam02687 351605002657 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 351605002658 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 351605002659 Tim44-like domain; Region: Tim44; pfam04280 351605002660 Uncharacterized protein family (UPF0182); Region: UPF0182; pfam03699 351605002661 Uncharacterized conserved protein [Function unknown]; Region: COG1615 351605002662 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 351605002663 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 351605002664 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 351605002665 HflX GTPase family; Region: HflX; cd01878 351605002666 G1 box; other site 351605002667 GTP/Mg2+ binding site [chemical binding]; other site 351605002668 Switch I region; other site 351605002669 G2 box; other site 351605002670 G3 box; other site 351605002671 Switch II region; other site 351605002672 G4 box; other site 351605002673 G5 box; other site 351605002674 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 351605002675 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 351605002676 NAD binding site [chemical binding]; other site 351605002677 homotetramer interface [polypeptide binding]; other site 351605002678 homodimer interface [polypeptide binding]; other site 351605002679 substrate binding site [chemical binding]; other site 351605002680 active site 351605002681 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 351605002682 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 351605002683 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 351605002684 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 351605002685 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 351605002686 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 351605002687 Zn2+ binding site [ion binding]; other site 351605002688 Mg2+ binding site [ion binding]; other site 351605002689 TSCPD domain; Region: TSCPD; cl14834 351605002690 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 351605002691 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605002692 active site 351605002693 phosphorylation site [posttranslational modification] 351605002694 intermolecular recognition site; other site 351605002695 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 351605002696 putative deacylase active site [active] 351605002697 NAD-dependent deacetylase; Provisional; Region: PRK00481 351605002698 SIR2 superfamily 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; cd00296 351605002699 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 351605002700 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 351605002701 FMN binding site [chemical binding]; other site 351605002702 active site 351605002703 catalytic residues [active] 351605002704 substrate binding site [chemical binding]; other site 351605002705 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 351605002706 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 351605002707 putative active site [active] 351605002708 heme pocket [chemical binding]; other site 351605002709 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 351605002710 phosphorylation site [posttranslational modification] 351605002711 dimer interface [polypeptide binding]; other site 351605002712 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 351605002713 ATP binding site [chemical binding]; other site 351605002714 Mg2+ binding site [ion binding]; other site 351605002715 G-X-G motif; other site 351605002716 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 351605002717 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605002718 active site 351605002719 phosphorylation site [posttranslational modification] 351605002720 intermolecular recognition site; other site 351605002721 dimerization interface [polypeptide binding]; other site 351605002722 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 351605002723 Walker A motif; other site 351605002724 ATP binding site [chemical binding]; other site 351605002725 Walker B motif; other site 351605002726 arginine finger; other site 351605002727 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 351605002728 Isochorismatase family; Region: Isochorismatase; pfam00857 351605002729 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 351605002730 catalytic triad [active] 351605002731 dimer interface [polypeptide binding]; other site 351605002732 conserved cis-peptide bond; other site 351605002733 Transcriptional regulator [Transcription]; Region: LysR; COG0583 351605002734 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 351605002735 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 351605002736 dimerization interface [polypeptide binding]; other site 351605002737 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 351605002738 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 351605002739 Uncharacterized conserved protein [Function unknown]; Region: COG3391 351605002740 SdiA-regulated; Region: SdiA-regulated; cd09971 351605002741 NHL repeat; Region: NHL; pfam01436 351605002742 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 351605002743 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605002744 active site 351605002745 phosphorylation site [posttranslational modification] 351605002746 intermolecular recognition site; other site 351605002747 dimerization interface [polypeptide binding]; other site 351605002748 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 351605002749 Walker A motif; other site 351605002750 ATP binding site [chemical binding]; other site 351605002751 Walker B motif; other site 351605002752 arginine finger; other site 351605002753 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 351605002754 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 351605002755 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605002756 active site 351605002757 phosphorylation site [posttranslational modification] 351605002758 intermolecular recognition site; other site 351605002759 dimerization interface [polypeptide binding]; other site 351605002760 PilZ domain; Region: PilZ; cl01260 351605002761 replicative DNA helicase; Region: DnaB; TIGR00665 351605002762 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 351605002763 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 351605002764 Walker A motif; other site 351605002765 ATP binding site [chemical binding]; other site 351605002766 Walker B motif; other site 351605002767 DNA binding loops [nucleotide binding] 351605002768 Recombination protein O N terminal; Region: RecO_N; pfam11967 351605002769 DNA repair protein RecO; Region: reco; TIGR00613 351605002770 Recombination protein O C terminal; Region: RecO_C; pfam02565 351605002771 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 351605002772 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 351605002773 TPR motif; other site 351605002774 binding surface 351605002775 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 351605002776 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 351605002777 folate binding site [chemical binding]; other site 351605002778 NADP+ binding site [chemical binding]; other site 351605002779 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 351605002780 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 351605002781 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 351605002782 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 351605002783 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 351605002784 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 351605002785 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 351605002786 MutS domain III; Region: MutS_III; pfam05192 351605002787 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351605002788 Walker A/P-loop; other site 351605002789 ATP binding site [chemical binding]; other site 351605002790 Q-loop/lid; other site 351605002791 ABC transporter signature motif; other site 351605002792 Walker B; other site 351605002793 D-loop; other site 351605002794 H-loop/switch region; other site 351605002795 Smr domain; Region: Smr; pfam01713 351605002796 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 351605002797 PLD-like domain; Region: PLDc_2; pfam13091 351605002798 putative active site [active] 351605002799 catalytic site [active] 351605002800 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 351605002801 PLD-like domain; Region: PLDc_2; pfam13091 351605002802 putative active site [active] 351605002803 catalytic site [active] 351605002804 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 351605002805 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 351605002806 Aspartase; Region: Aspartase; cd01357 351605002807 active sites [active] 351605002808 tetramer interface [polypeptide binding]; other site 351605002809 Uncharacterized conserved protein [Function unknown]; Region: COG1633 351605002810 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 351605002811 diiron binding motif [ion binding]; other site 351605002812 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 351605002813 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 351605002814 motif II; other site 351605002815 Uncharacterized conserved protein [Function unknown]; Region: COG1565 351605002816 Predicted transcriptional regulator [Transcription]; Region: COG2378 351605002817 HTH domain; Region: HTH_11; pfam08279 351605002818 WYL domain; Region: WYL; pfam13280 351605002819 helicase 45; Provisional; Region: PTZ00424 351605002820 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 351605002821 ATP binding site [chemical binding]; other site 351605002822 Mg++ binding site [ion binding]; other site 351605002823 motif III; other site 351605002824 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 351605002825 nucleotide binding region [chemical binding]; other site 351605002826 ATP-binding site [chemical binding]; other site 351605002827 PIN domain of the Rv0301 toxin of Mycobacterium tuberculosis and other uncharacterized, annotated PilT protein domain proteins; Region: PIN_MtRv0301; cd09882 351605002828 putative active site [active] 351605002829 Uncharacterized protein conserved in bacteria (DUF2191); Region: DUF2191; pfam09957 351605002830 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 351605002831 SET domain; Region: SET; pfam00856 351605002832 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 351605002833 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 351605002834 DnaA box-binding interface [nucleotide binding]; other site 351605002835 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 351605002836 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 351605002837 catalytic residue [active] 351605002838 Serine carboxypeptidase; Region: Peptidase_S10; pfam00450 351605002839 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 351605002840 Peptidase family M23; Region: Peptidase_M23; pfam01551 351605002841 Putative methyltransferase; Region: Methyltransf_4; cl17290 351605002842 glutamate dehydrogenase 2; Provisional; Region: PTZ00324 351605002843 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 351605002844 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 351605002845 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 351605002846 DNA-binding site [nucleotide binding]; DNA binding site 351605002847 RNA-binding motif; other site 351605002848 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 351605002849 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 351605002850 dimerization interface [polypeptide binding]; other site 351605002851 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 351605002852 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 351605002853 dimer interface [polypeptide binding]; other site 351605002854 putative CheW interface [polypeptide binding]; other site 351605002855 Cytochrome c; Region: Cytochrom_C; cl11414 351605002856 CheD chemotactic sensory transduction; Region: CheD; cl00810 351605002857 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 351605002858 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 351605002859 active site 351605002860 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 351605002861 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 351605002862 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 351605002863 Surface antigen; Region: Bac_surface_Ag; pfam01103 351605002864 Rhomboid family; Region: Rhomboid; cl11446 351605002865 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 351605002866 active site 351605002867 Response regulator receiver domain; Region: Response_reg; pfam00072 351605002868 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605002869 active site 351605002870 phosphorylation site [posttranslational modification] 351605002871 intermolecular recognition site; other site 351605002872 dimerization interface [polypeptide binding]; other site 351605002873 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 351605002874 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 351605002875 TPP-binding site [chemical binding]; other site 351605002876 dimer interface [polypeptide binding]; other site 351605002877 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 351605002878 PYR/PP interface [polypeptide binding]; other site 351605002879 dimer interface [polypeptide binding]; other site 351605002880 TPP binding site [chemical binding]; other site 351605002881 Uncharacterized conserved protein [Function unknown]; Region: COG0585 351605002882 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 351605002883 active site 351605002884 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 351605002885 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 351605002886 Domain of unknown function (DUF4212); Region: DUF4212; cl01781 351605002887 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 351605002888 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 351605002889 Na binding site [ion binding]; other site 351605002890 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 351605002891 metal binding triad; other site 351605002892 Putative nucleotidyltransferase substrate binding domain; Region: DUF294_C; pfam10335 351605002893 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 351605002894 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 351605002895 AP (apurinic/apyrimidinic) site pocket; other site 351605002896 DNA interaction; other site 351605002897 Metal-binding active site; metal-binding site 351605002898 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 351605002899 Putative catalytic NodB homology domain of a hypothetical protein Ecf1 from Escherichia coli and similar proteins; Region: CE4_Ecf1_like_5s; cd10969 351605002900 putative active site [active] 351605002901 putative metal binding site [ion binding]; other site 351605002902 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 351605002903 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 351605002904 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605002905 active site 351605002906 phosphorylation site [posttranslational modification] 351605002907 intermolecular recognition site; other site 351605002908 dimerization interface [polypeptide binding]; other site 351605002909 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 351605002910 pyrroline-5-carboxylate reductase; Region: PLN02688 351605002911 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 351605002912 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 351605002913 non-specific DNA binding site [nucleotide binding]; other site 351605002914 salt bridge; other site 351605002915 sequence-specific DNA binding site [nucleotide binding]; other site 351605002916 Cupin domain; Region: Cupin_2; pfam07883 351605002917 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 351605002918 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 351605002919 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 351605002920 dimer interface [polypeptide binding]; other site 351605002921 active site 351605002922 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 351605002923 catalytic residues [active] 351605002924 substrate binding site [chemical binding]; other site 351605002925 arginine decarboxylase; Provisional; Region: PRK05354 351605002926 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 351605002927 active site 351605002928 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 351605002929 catalytic residues [active] 351605002930 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 351605002931 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 351605002932 Major Facilitator Superfamily; Region: MFS_1; pfam07690 351605002933 putative substrate translocation pore; other site 351605002934 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 351605002935 putative binding surface; other site 351605002936 active site 351605002937 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 351605002938 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 351605002939 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 351605002940 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 351605002941 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 351605002942 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 351605002943 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 351605002944 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 351605002945 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 351605002946 putative MPT binding site; other site 351605002947 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 351605002948 selenium-dependent molybdenum hydroxylase 1; Region: Se_dep_Molyb_1; TIGR03311 351605002949 catalytic loop [active] 351605002950 iron binding site [ion binding]; other site 351605002951 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 351605002952 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 351605002953 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 351605002954 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 351605002955 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 351605002956 Cysteine-rich domain; Region: CCG; pfam02754 351605002957 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 351605002958 Methyltransferase domain; Region: Methyltransf_31; pfam13847 351605002959 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 351605002960 S-adenosylmethionine binding site [chemical binding]; other site 351605002961 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 351605002962 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 351605002963 Radical SAM superfamily; Region: Radical_SAM; pfam04055 351605002964 FeS/SAM binding site; other site 351605002965 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 351605002966 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 351605002967 acyl-activating enzyme (AAE) consensus motif; other site 351605002968 active site 351605002969 AMP binding site [chemical binding]; other site 351605002970 CoA binding site [chemical binding]; other site 351605002971 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 351605002972 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 351605002973 XdhC Rossmann domain; Region: XdhC_C; pfam13478 351605002974 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 351605002975 Ligand binding site; other site 351605002976 metal-binding site 351605002977 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 351605002978 Zn2+ binding site [ion binding]; other site 351605002979 Mg2+ binding site [ion binding]; other site 351605002980 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 351605002981 catalytic core [active] 351605002982 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 351605002983 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2929 351605002984 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 351605002985 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 351605002986 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 351605002987 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 351605002988 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 351605002989 non-specific DNA binding site [nucleotide binding]; other site 351605002990 salt bridge; other site 351605002991 sequence-specific DNA binding site [nucleotide binding]; other site 351605002992 Domain of unknown function (DUF955); Region: DUF955; pfam06114 351605002993 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 351605002994 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 351605002995 FeS/SAM binding site; other site 351605002996 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 351605002997 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 351605002998 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 351605002999 TPP-binding site; other site 351605003000 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 351605003001 PYR/PP interface [polypeptide binding]; other site 351605003002 dimer interface [polypeptide binding]; other site 351605003003 TPP binding site [chemical binding]; other site 351605003004 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 351605003005 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 351605003006 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 351605003007 putative NADP binding site [chemical binding]; other site 351605003008 putative substrate binding site [chemical binding]; other site 351605003009 active site 351605003010 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 351605003011 Squalene cyclase (SQCY) domain subgroup 1; found in class II terpene cyclases that have an alpha 6 - alpha 6 barrel fold. Squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY) are integral membrane proteins that catalyze a cationic cyclization...; Region: SQCY_1; cd02892 351605003012 Active site cavity [active] 351605003013 catalytic acid [active] 351605003014 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 351605003015 Methyltransferase domain; Region: Methyltransf_31; pfam13847 351605003016 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 351605003017 S-adenosylmethionine binding site [chemical binding]; other site 351605003018 Protein of unknown function, DUF399; Region: DUF399; pfam04187 351605003019 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 351605003020 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 351605003021 Walker A motif; other site 351605003022 ATP binding site [chemical binding]; other site 351605003023 Walker B motif; other site 351605003024 arginine finger; other site 351605003025 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 351605003026 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 351605003027 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 351605003028 ATP binding site [chemical binding]; other site 351605003029 putative Mg++ binding site [ion binding]; other site 351605003030 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; cl17351 351605003031 nucleotide binding region [chemical binding]; other site 351605003032 ATP-binding site [chemical binding]; other site 351605003033 EcoEI R protein C-terminal; Region: EcoEI_R_C; pfam08463 351605003034 HsdM N-terminal domain; Region: HsdM_N; pfam12161 351605003035 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 351605003036 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 351605003037 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 351605003038 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351605003039 Walker A/P-loop; other site 351605003040 ATP binding site [chemical binding]; other site 351605003041 Protein of unknown function (DUF3696); Region: DUF3696; pfam12476 351605003042 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 351605003043 G1 box; other site 351605003044 G2 box; other site 351605003045 Switch I region; other site 351605003046 G3 box; other site 351605003047 Switch II region; other site 351605003048 hopanoid biosynthesis associated glycosyl transferase protein HpnI; Region: HpnI; TIGR03472 351605003049 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 351605003050 ligand binding site; other site 351605003051 elongation factor G; Reviewed; Region: PRK13351 351605003052 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 351605003053 G1 box; other site 351605003054 putative GEF interaction site [polypeptide binding]; other site 351605003055 GTP/Mg2+ binding site [chemical binding]; other site 351605003056 Switch I region; other site 351605003057 G2 box; other site 351605003058 G3 box; other site 351605003059 Switch II region; other site 351605003060 G4 box; other site 351605003061 G5 box; other site 351605003062 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 351605003063 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 351605003064 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 351605003065 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 351605003066 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 351605003067 tetrameric interface [polypeptide binding]; other site 351605003068 activator binding site; other site 351605003069 NADP binding site [chemical binding]; other site 351605003070 substrate binding site [chemical binding]; other site 351605003071 catalytic residues [active] 351605003072 Transcription factor zinc-finger; Region: zf-TFIIB; pfam13453 351605003073 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 351605003074 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 351605003075 ribonuclease Z; Provisional; Region: PRK02126 351605003076 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 351605003077 Permease; Region: Permease; pfam02405 351605003078 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 351605003079 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 351605003080 Walker A/P-loop; other site 351605003081 ATP binding site [chemical binding]; other site 351605003082 Q-loop/lid; other site 351605003083 ABC transporter signature motif; other site 351605003084 Walker B; other site 351605003085 D-loop; other site 351605003086 H-loop/switch region; other site 351605003087 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 351605003088 mce related protein; Region: MCE; pfam02470 351605003089 Outer membrane efflux protein; Region: OEP; pfam02321 351605003090 Outer membrane efflux protein; Region: OEP; pfam02321 351605003091 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 351605003092 methionine sulfoxide reductase A; Provisional; Region: PRK14054 351605003093 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 351605003094 tartrate dehydrogenase; Region: TTC; TIGR02089 351605003095 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 351605003096 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 351605003097 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 351605003098 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 351605003099 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 351605003100 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 351605003101 dimerization interface 3.5A [polypeptide binding]; other site 351605003102 active site 351605003103 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 351605003104 23S rRNA interface [nucleotide binding]; other site 351605003105 L3 interface [polypeptide binding]; other site 351605003106 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 351605003107 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 351605003108 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 351605003109 uncharacterized radical SAM protein YgiQ; Region: SAM_YgiQ; TIGR03904 351605003110 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 351605003111 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 351605003112 elongation factor Tu; Reviewed; Region: PRK00049 351605003113 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 351605003114 G1 box; other site 351605003115 GEF interaction site [polypeptide binding]; other site 351605003116 GTP/Mg2+ binding site [chemical binding]; other site 351605003117 Switch I region; other site 351605003118 G2 box; other site 351605003119 G3 box; other site 351605003120 Switch II region; other site 351605003121 G4 box; other site 351605003122 G5 box; other site 351605003123 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 351605003124 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 351605003125 Antibiotic Binding Site [chemical binding]; other site 351605003126 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 351605003127 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 351605003128 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 351605003129 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 351605003130 putative homodimer interface [polypeptide binding]; other site 351605003131 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 351605003132 heterodimer interface [polypeptide binding]; other site 351605003133 homodimer interface [polypeptide binding]; other site 351605003134 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 351605003135 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 351605003136 23S rRNA interface [nucleotide binding]; other site 351605003137 L7/L12 interface [polypeptide binding]; other site 351605003138 putative thiostrepton binding site; other site 351605003139 L25 interface [polypeptide binding]; other site 351605003140 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 351605003141 mRNA/rRNA interface [nucleotide binding]; other site 351605003142 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 351605003143 23S rRNA interface [nucleotide binding]; other site 351605003144 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 351605003145 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 351605003146 core dimer interface [polypeptide binding]; other site 351605003147 peripheral dimer interface [polypeptide binding]; other site 351605003148 L10 interface [polypeptide binding]; other site 351605003149 L11 interface [polypeptide binding]; other site 351605003150 putative EF-Tu interaction site [polypeptide binding]; other site 351605003151 putative EF-G interaction site [polypeptide binding]; other site 351605003152 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 351605003153 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 351605003154 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 351605003155 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 351605003156 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 351605003157 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 351605003158 RPB3 interaction site [polypeptide binding]; other site 351605003159 RPB1 interaction site [polypeptide binding]; other site 351605003160 RPB11 interaction site [polypeptide binding]; other site 351605003161 RPB10 interaction site [polypeptide binding]; other site 351605003162 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 351605003163 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 351605003164 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 351605003165 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 351605003166 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 351605003167 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 351605003168 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 351605003169 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 351605003170 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 351605003171 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 351605003172 DNA binding site [nucleotide binding] 351605003173 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 351605003174 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 351605003175 S17 interaction site [polypeptide binding]; other site 351605003176 S8 interaction site; other site 351605003177 16S rRNA interaction site [nucleotide binding]; other site 351605003178 streptomycin interaction site [chemical binding]; other site 351605003179 23S rRNA interaction site [nucleotide binding]; other site 351605003180 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 351605003181 30S ribosomal protein S7; Validated; Region: PRK05302 351605003182 elongation factor G; Reviewed; Region: PRK00007 351605003183 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 351605003184 G1 box; other site 351605003185 putative GEF interaction site [polypeptide binding]; other site 351605003186 GTP/Mg2+ binding site [chemical binding]; other site 351605003187 Switch I region; other site 351605003188 G2 box; other site 351605003189 G3 box; other site 351605003190 Switch II region; other site 351605003191 G4 box; other site 351605003192 G5 box; other site 351605003193 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 351605003194 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 351605003195 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 351605003196 elongation factor Tu; Reviewed; Region: PRK00049 351605003197 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 351605003198 G1 box; other site 351605003199 GEF interaction site [polypeptide binding]; other site 351605003200 GTP/Mg2+ binding site [chemical binding]; other site 351605003201 Switch I region; other site 351605003202 G2 box; other site 351605003203 G3 box; other site 351605003204 Switch II region; other site 351605003205 G4 box; other site 351605003206 G5 box; other site 351605003207 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 351605003208 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 351605003209 Antibiotic Binding Site [chemical binding]; other site 351605003210 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 351605003211 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 351605003212 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 351605003213 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 351605003214 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 351605003215 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 351605003216 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 351605003217 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 351605003218 protein-rRNA interface [nucleotide binding]; other site 351605003219 putative translocon binding site; other site 351605003220 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 351605003221 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 351605003222 G-X-X-G motif; other site 351605003223 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 351605003224 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 351605003225 23S rRNA interface [nucleotide binding]; other site 351605003226 5S rRNA interface [nucleotide binding]; other site 351605003227 putative antibiotic binding site [chemical binding]; other site 351605003228 L25 interface [polypeptide binding]; other site 351605003229 L27 interface [polypeptide binding]; other site 351605003230 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 351605003231 23S rRNA interface [nucleotide binding]; other site 351605003232 putative translocon interaction site; other site 351605003233 signal recognition particle (SRP54) interaction site; other site 351605003234 L23 interface [polypeptide binding]; other site 351605003235 trigger factor interaction site; other site 351605003236 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 351605003237 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 351605003238 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 351605003239 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 351605003240 RNA binding site [nucleotide binding]; other site 351605003241 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 351605003242 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 351605003243 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 351605003244 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 351605003245 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 351605003246 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 351605003247 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 351605003248 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 351605003249 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 351605003250 5S rRNA interface [nucleotide binding]; other site 351605003251 L27 interface [polypeptide binding]; other site 351605003252 23S rRNA interface [nucleotide binding]; other site 351605003253 L5 interface [polypeptide binding]; other site 351605003254 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 351605003255 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 351605003256 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 351605003257 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 351605003258 23S rRNA binding site [nucleotide binding]; other site 351605003259 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 351605003260 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 351605003261 SecY translocase; Region: SecY; pfam00344 351605003262 adenylate kinase; Reviewed; Region: adk; PRK00279 351605003263 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 351605003264 AMP-binding site [chemical binding]; other site 351605003265 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 351605003266 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 351605003267 active site 351605003268 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 351605003269 30S ribosomal protein S13; Region: bact_S13; TIGR03631 351605003270 30S ribosomal protein S11; Validated; Region: PRK05309 351605003271 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 351605003272 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 351605003273 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 351605003274 RNA binding surface [nucleotide binding]; other site 351605003275 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 351605003276 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 351605003277 alphaNTD homodimer interface [polypeptide binding]; other site 351605003278 alphaNTD - beta interaction site [polypeptide binding]; other site 351605003279 alphaNTD - beta' interaction site [polypeptide binding]; other site 351605003280 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 351605003281 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 351605003282 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 351605003283 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 351605003284 Walker A/P-loop; other site 351605003285 ATP binding site [chemical binding]; other site 351605003286 Q-loop/lid; other site 351605003287 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 351605003288 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 351605003289 ABC transporter signature motif; other site 351605003290 Walker B; other site 351605003291 D-loop; other site 351605003292 H-loop/switch region; other site 351605003293 Roadblock/LC7 domain; Region: Robl_LC7; smart00960 351605003294 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 351605003295 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 351605003296 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 351605003297 P loop; other site 351605003298 GTP binding site [chemical binding]; other site 351605003299 Protein of unknown function (DUF904); Region: DUF904; pfam06005 351605003300 Cell division protein ZapA; Region: ZapA; pfam05164 351605003301 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 351605003302 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 351605003303 phosphodiesterase; Provisional; Region: PRK12704 351605003304 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 351605003305 Zn2+ binding site [ion binding]; other site 351605003306 Mg2+ binding site [ion binding]; other site 351605003307 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 351605003308 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 351605003309 putative active site [active] 351605003310 metal binding site [ion binding]; metal-binding site 351605003311 homodimer binding site [polypeptide binding]; other site 351605003312 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 351605003313 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 351605003314 active site 351605003315 HIGH motif; other site 351605003316 dimer interface [polypeptide binding]; other site 351605003317 KMSKS motif; other site 351605003318 S4 RNA-binding domain; Region: S4; smart00363 351605003319 RNA binding surface [nucleotide binding]; other site 351605003320 Winged helix-turn helix; Region: HTH_29; pfam13551 351605003321 Integrase core domain; Region: rve; pfam00665 351605003322 Integrase core domain; Region: rve_3; pfam13683 351605003323 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 351605003324 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 351605003325 Walker A motif; other site 351605003326 ATP binding site [chemical binding]; other site 351605003327 Walker B motif; other site 351605003328 arginine finger; other site 351605003329 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 351605003330 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 351605003331 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 351605003332 DNA binding site [nucleotide binding] 351605003333 Bacterial transcriptional activator domain; Region: BTAD; smart01043 351605003334 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 351605003335 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 351605003336 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 351605003337 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 351605003338 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 351605003339 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 351605003340 Coenzyme F420-reducing hydrogenase, alpha subunit [Energy production and conversion]; Region: FrhA; COG3259 351605003341 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 351605003342 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 351605003343 cytochrome-c3 hydrogenase subunit gamma; Provisional; Region: PRK08345 351605003344 Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is...; Region: sulfite_reductase_like; cd06221 351605003345 FAD binding pocket [chemical binding]; other site 351605003346 FAD binding motif [chemical binding]; other site 351605003347 phosphate binding motif [ion binding]; other site 351605003348 beta-alpha-beta structure motif; other site 351605003349 NAD binding pocket [chemical binding]; other site 351605003350 Iron coordination center [ion binding]; other site 351605003351 anaerobic sulfite reductase subunit A; Provisional; Region: PRK15055 351605003352 Outer membrane efflux protein; Region: OEP; pfam02321 351605003353 Outer membrane efflux protein; Region: OEP; pfam02321 351605003354 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 351605003355 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 351605003356 FtsX-like permease family; Region: FtsX; pfam02687 351605003357 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 351605003358 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 351605003359 Walker A/P-loop; other site 351605003360 ATP binding site [chemical binding]; other site 351605003361 Q-loop/lid; other site 351605003362 ABC transporter signature motif; other site 351605003363 Walker B; other site 351605003364 D-loop; other site 351605003365 H-loop/switch region; other site 351605003366 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 351605003367 HlyD family secretion protein; Region: HlyD_3; pfam13437 351605003368 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 351605003369 MarR family; Region: MarR; pfam01047 351605003370 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 351605003371 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 351605003372 active site 351605003373 DNA polymerase IV; Reviewed; Region: PRK03103 351605003374 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 351605003375 active site 351605003376 DNA binding site [nucleotide binding] 351605003377 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 351605003378 active site 351605003379 NTP binding site [chemical binding]; other site 351605003380 metal binding triad [ion binding]; metal-binding site 351605003381 antibiotic binding site [chemical binding]; other site 351605003382 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; pfam08780 351605003383 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 351605003384 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 351605003385 non-specific DNA binding site [nucleotide binding]; other site 351605003386 salt bridge; other site 351605003387 sequence-specific DNA binding site [nucleotide binding]; other site 351605003388 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 351605003389 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 351605003390 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 351605003391 oligomeric interface; other site 351605003392 putative active site [active] 351605003393 homodimer interface [polypeptide binding]; other site 351605003394 PIN domain; Region: PIN_3; cl17397 351605003395 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 351605003396 LexA repressor; Validated; Region: PRK00215 351605003397 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 351605003398 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 351605003399 Catalytic site [active] 351605003400 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 351605003401 Domain of unknown function DUF21; Region: DUF21; pfam01595 351605003402 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 351605003403 Transporter associated domain; Region: CorC_HlyC; smart01091 351605003404 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 351605003405 Peptidase family M48; Region: Peptidase_M48; cl12018 351605003406 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 351605003407 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605003408 active site 351605003409 phosphorylation site [posttranslational modification] 351605003410 intermolecular recognition site; other site 351605003411 dimerization interface [polypeptide binding]; other site 351605003412 ANTAR domain; Region: ANTAR; pfam03861 351605003413 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 351605003414 HlyD family secretion protein; Region: HlyD_3; pfam13437 351605003415 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 351605003416 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 351605003417 Walker A/P-loop; other site 351605003418 ATP binding site [chemical binding]; other site 351605003419 Q-loop/lid; other site 351605003420 ABC transporter signature motif; other site 351605003421 Walker B; other site 351605003422 D-loop; other site 351605003423 H-loop/switch region; other site 351605003424 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 351605003425 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 351605003426 Walker A/P-loop; other site 351605003427 ATP binding site [chemical binding]; other site 351605003428 Q-loop/lid; other site 351605003429 ABC transporter signature motif; other site 351605003430 Walker B; other site 351605003431 D-loop; other site 351605003432 H-loop/switch region; other site 351605003433 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 351605003434 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 351605003435 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 351605003436 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 351605003437 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 351605003438 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 351605003439 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 351605003440 Walker A motif; other site 351605003441 ATP binding site [chemical binding]; other site 351605003442 Walker B motif; other site 351605003443 arginine finger; other site 351605003444 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 351605003445 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_C39G; cd02423 351605003446 putative active site [active] 351605003447 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 351605003448 Family description; Region: VCBS; pfam13517 351605003449 Family description; Region: VCBS; pfam13517 351605003450 Insecticide toxin TcdB middle/N-terminal region; Region: TcdB_toxin_midN; pfam12256 351605003451 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 351605003452 RHS Repeat; Region: RHS_repeat; pfam05593 351605003453 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 351605003454 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 351605003455 Fn3 associated; Region: Fn3_assoc; pfam13287 351605003456 Fn3 associated; Region: Fn3_assoc; pfam13287 351605003457 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C; pfam03174 351605003458 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C; pfam03174 351605003459 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 351605003460 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C; pfam03174 351605003461 Ser-Thr-rich glycosyl-phosphatidyl-inositol-anchored membrane family; Region: GPI-anchored; pfam10342 351605003462 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 351605003463 Uncharacterized conserved protein [Function unknown]; Region: COG1633 351605003464 dinuclear metal binding motif [ion binding]; other site 351605003465 YGGT family; Region: YGGT; pfam02325 351605003466 DivIVA protein; Region: DivIVA; pfam05103 351605003467 DivIVA domain; Region: DivI1A_domain; TIGR03544 351605003468 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 351605003469 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 351605003470 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 351605003471 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 351605003472 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 351605003473 homodimer interface [polypeptide binding]; other site 351605003474 NADP binding site [chemical binding]; other site 351605003475 substrate binding site [chemical binding]; other site 351605003476 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 351605003477 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 351605003478 FAD binding site [chemical binding]; other site 351605003479 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 351605003480 active site 351605003481 tetramer interface; other site 351605003482 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 351605003483 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 351605003484 Predicted membrane protein [Function unknown]; Region: COG2119 351605003485 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 351605003486 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 351605003487 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 351605003488 nitrogenase iron protein; Region: nifH; TIGR01287 351605003489 Nucleotide-binding sites [chemical binding]; other site 351605003490 Walker A motif; other site 351605003491 Switch I region of nucleotide binding site; other site 351605003492 Fe4S4 binding sites [ion binding]; other site 351605003493 Switch II region of nucleotide binding site; other site 351605003494 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 351605003495 Nitrogenase_MoFe_alpha_II: Nitrogenase MoFe protein, beta subunit. A group of proteins similar to the alpha subunit of the MoFe protein of the molybdenum (Mo-) nitrogenase. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to...; Region: Nitrogenase_MoFe_alpha; cd01976 351605003496 MoFe protein alpha/beta subunit interactions; other site 351605003497 Alpha subunit P cluster binding residues; other site 351605003498 FeMoco binding residues [chemical binding]; other site 351605003499 MoFe protein alpha subunit/Fe protein contacts; other site 351605003500 MoFe protein dimer/ dimer interactions; other site 351605003501 nitrogenase molybdenum-iron protein beta chain; Region: nifK; TIGR01286 351605003502 Domain of unknown function (DUF3364); Region: DUF3364; pfam11844 351605003503 Nitrogenase_MoFe_beta: Nitrogenase MoFe protein, beta subunit. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Molybdenum (Mo-) nitrogenase is the most widespread and best characterized of these systems; Region: Nitrogenase_MoFe_beta; cd01974 351605003504 MoFe protein beta/alpha subunit interactions; other site 351605003505 Beta subunit P cluster binding residues; other site 351605003506 MoFe protein beta subunit/Fe protein contacts; other site 351605003507 MoFe protein dimer/ dimer interactions; other site 351605003508 Ubiquitin-like proteins; Region: UBQ; cl00155 351605003509 Virulence protein [General function prediction only]; Region: COG3943 351605003510 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 351605003511 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 351605003512 four helix bundle suffix domain; Region: 4helix_suffix; TIGR04258 351605003513 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 351605003514 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 351605003515 putative substrate translocation pore; other site 351605003516 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 351605003517 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 351605003518 Protein of unknown function (DUF1093); Region: DUF1093; cl02185 351605003519 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 351605003520 HlyD family secretion protein; Region: HlyD_3; pfam13437 351605003521 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 351605003522 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 351605003523 Walker A/P-loop; other site 351605003524 ATP binding site [chemical binding]; other site 351605003525 Q-loop/lid; other site 351605003526 ABC transporter signature motif; other site 351605003527 Walker B; other site 351605003528 D-loop; other site 351605003529 H-loop/switch region; other site 351605003530 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 351605003531 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 351605003532 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 351605003533 Walker A/P-loop; other site 351605003534 ATP binding site [chemical binding]; other site 351605003535 Q-loop/lid; other site 351605003536 ABC transporter signature motif; other site 351605003537 Walker B; other site 351605003538 D-loop; other site 351605003539 H-loop/switch region; other site 351605003540 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 351605003541 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 351605003542 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 351605003543 dimer interface [polypeptide binding]; other site 351605003544 conserved gate region; other site 351605003545 putative PBP binding loops; other site 351605003546 ABC-ATPase subunit interface; other site 351605003547 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 351605003548 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 351605003549 dimer interface [polypeptide binding]; other site 351605003550 conserved gate region; other site 351605003551 putative PBP binding loops; other site 351605003552 ABC-ATPase subunit interface; other site 351605003553 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 351605003554 putative active site [active] 351605003555 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 351605003556 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_5; cd08511 351605003557 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 351605003558 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 351605003559 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 351605003560 dimerization interface [polypeptide binding]; other site 351605003561 PAS domain; Region: PAS; smart00091 351605003562 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 351605003563 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 351605003564 dimer interface [polypeptide binding]; other site 351605003565 putative CheW interface [polypeptide binding]; other site 351605003566 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 351605003567 Fasciclin domain; Region: Fasciclin; pfam02469 351605003568 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 351605003569 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 351605003570 ATP binding site [chemical binding]; other site 351605003571 substrate interface [chemical binding]; other site 351605003572 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 351605003573 MoaE interaction surface [polypeptide binding]; other site 351605003574 MoeB interaction surface [polypeptide binding]; other site 351605003575 thiocarboxylated glycine; other site 351605003576 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 351605003577 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 351605003578 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 351605003579 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 351605003580 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 351605003581 dimer interface [polypeptide binding]; other site 351605003582 active site 351605003583 metal binding site [ion binding]; metal-binding site 351605003584 Isochorismatase family; Region: Isochorismatase; pfam00857 351605003585 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 351605003586 catalytic triad [active] 351605003587 conserved cis-peptide bond; other site 351605003588 Transcriptional regulator [Transcription]; Region: LysR; COG0583 351605003589 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 351605003590 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 351605003591 dimerization interface [polypeptide binding]; other site 351605003592 HEPN domain; Region: HEPN; pfam05168 351605003593 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 351605003594 active site 351605003595 NTP binding site [chemical binding]; other site 351605003596 metal binding triad [ion binding]; metal-binding site 351605003597 antibiotic binding site [chemical binding]; other site 351605003598 bifunctional nitrogenase molybdenum-cofactor biosynthesis protein NifE/NifN; Provisional; Region: PRK14477 351605003599 Nitrogenase_NifE_I: a subgroup of the NifE subunit of the NifEN complex: NifE forms an alpha2beta2 tetramer with NifN. NifE and NifN are structurally homologous to nitrogenase MoFe protein alpha and beta subunits respectively. NifEN participates in the...; Region: Nitrogenase_NifE_I; cd01968 351605003600 Nitrogenase_nifN1: A subgroup of the NifN subunit of the NifEN complex: NifN forms an alpha2beta2 tetramer with NifE. NifN and nifE are structurally homologous to nitrogenase MoFe protein beta and alpha subunits respectively. NifEN participates in the...; Region: Nitrogenase_NifN_1; cd01966 351605003601 NifX belongs to a family of iron-molybdenum cluster-binding proteins that includes NifB, 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. The protein...; Region: NifX; cd00853 351605003602 ferredoxin III, nif-specific; Region: fdxN_nitrog; TIGR02936 351605003603 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 351605003604 NifB belongs to a family of iron-molybdenum cluster-binding proteins that includes 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 as part of...; Region: NifB; cd00852 351605003605 Dinitrogenase reductase ADP-ribosyltransferase (DRAT); Region: DRAT; pfam07357 351605003606 ADP-ribosyl-[dinitrogen reductase] hydrolase; Region: dinitro_DRAG; TIGR02662 351605003607 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 351605003608 Radical SAM superfamily; Region: Radical_SAM; pfam04055 351605003609 FeS/SAM binding site; other site 351605003610 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 351605003611 Coenzyme A binding pocket [chemical binding]; other site 351605003612 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 351605003613 Ligand binding site [chemical binding]; other site 351605003614 Electron transfer flavoprotein domain; Region: ETF; pfam01012 351605003615 2-oxoacid:acceptor oxidoreductase, delta subunit, pyruvate/2-ketoisovalerate family; Region: PorD_KorD; TIGR02179 351605003616 4Fe-4S binding domain; Region: Fer4; pfam00037 351605003617 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 351605003618 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 351605003619 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 351605003620 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 351605003621 Cysteine-rich domain; Region: CCG; pfam02754 351605003622 Cysteine-rich domain; Region: CCG; pfam02754 351605003623 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 351605003624 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 351605003625 catalytic triad [active] 351605003626 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 351605003627 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 351605003628 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 351605003629 non-specific DNA binding site [nucleotide binding]; other site 351605003630 salt bridge; other site 351605003631 sequence-specific DNA binding site [nucleotide binding]; other site 351605003632 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 351605003633 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 351605003634 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 351605003635 DNA gyrase inhibitor [DNA replication, recombination, and repair]; Region: COG3449 351605003636 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 351605003637 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 351605003638 Fibronectin type 3 domain; Region: FN3; smart00060 351605003639 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 351605003640 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 351605003641 active site 351605003642 metal binding site [ion binding]; metal-binding site 351605003643 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 351605003644 5'-3' exonuclease; Region: 53EXOc; smart00475 351605003645 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 351605003646 active site 351605003647 metal binding site 1 [ion binding]; metal-binding site 351605003648 putative 5' ssDNA interaction site; other site 351605003649 metal binding site 3; metal-binding site 351605003650 metal binding site 2 [ion binding]; metal-binding site 351605003651 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 351605003652 putative DNA binding site [nucleotide binding]; other site 351605003653 putative metal binding site [ion binding]; other site 351605003654 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 351605003655 RNA/DNA hybrid binding site [nucleotide binding]; other site 351605003656 active site 351605003657 PAS fold; Region: PAS_4; pfam08448 351605003658 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 351605003659 putative active site [active] 351605003660 heme pocket [chemical binding]; other site 351605003661 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 351605003662 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 351605003663 putative active site [active] 351605003664 heme pocket [chemical binding]; other site 351605003665 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 351605003666 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 351605003667 putative active site [active] 351605003668 heme pocket [chemical binding]; other site 351605003669 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 351605003670 dimer interface [polypeptide binding]; other site 351605003671 phosphorylation site [posttranslational modification] 351605003672 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 351605003673 ATP binding site [chemical binding]; other site 351605003674 Mg2+ binding site [ion binding]; other site 351605003675 G-X-G motif; other site 351605003676 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 351605003677 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605003678 active site 351605003679 phosphorylation site [posttranslational modification] 351605003680 intermolecular recognition site; other site 351605003681 dimerization interface [polypeptide binding]; other site 351605003682 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 351605003683 DNA binding site [nucleotide binding] 351605003684 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 351605003685 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 351605003686 putative active site [active] 351605003687 putative NTP binding site [chemical binding]; other site 351605003688 putative nucleic acid binding site [nucleotide binding]; other site 351605003689 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 351605003690 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 351605003691 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 351605003692 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 351605003693 Ligand Binding Site [chemical binding]; other site 351605003694 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 351605003695 GAF domain; Region: GAF_3; pfam13492 351605003696 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 351605003697 dimer interface [polypeptide binding]; other site 351605003698 phosphorylation site [posttranslational modification] 351605003699 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 351605003700 ATP binding site [chemical binding]; other site 351605003701 Mg2+ binding site [ion binding]; other site 351605003702 G-X-G motif; other site 351605003703 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 351605003704 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 351605003705 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 351605003706 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 351605003707 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 351605003708 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 351605003709 catalytic triad [active] 351605003710 DTW domain; Region: DTW; cl01221 351605003711 seryl-tRNA synthetase; Region: serS; TIGR00414 351605003712 putative transposase OrfB; Reviewed; Region: PHA02517 351605003713 Integrase core domain; Region: rve; pfam00665 351605003714 Integrase core domain; Region: rve_3; pfam13683 351605003715 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 351605003716 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 351605003717 Homeodomain-like domain; Region: HTH_32; pfam13565 351605003718 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 351605003719 Integrase core domain; Region: rve; pfam00665 351605003720 Integrase core domain; Region: rve_3; pfam13683 351605003721 Salmonella virulence plasmid 65kDa B protein; Region: SpvB; pfam03534 351605003722 Family description; Region: VCBS; pfam13517 351605003723 Family description; Region: VCBS; pfam13517 351605003724 Insecticide toxin TcdB middle/N-terminal region; Region: TcdB_toxin_midN; pfam12256 351605003725 Nitroreductase-like family 3. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_3; cd02139 351605003726 putative FMN binding site [chemical binding]; other site 351605003727 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 351605003728 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 351605003729 mce related protein; Region: MCE; pfam02470 351605003730 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 351605003731 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 351605003732 Walker A/P-loop; other site 351605003733 ATP binding site [chemical binding]; other site 351605003734 Q-loop/lid; other site 351605003735 ABC transporter signature motif; other site 351605003736 Walker B; other site 351605003737 D-loop; other site 351605003738 H-loop/switch region; other site 351605003739 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 351605003740 Permease; Region: Permease; pfam02405 351605003741 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 351605003742 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 351605003743 Walker A motif; other site 351605003744 ATP binding site [chemical binding]; other site 351605003745 Walker B motif; other site 351605003746 arginine finger; other site 351605003747 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 351605003748 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 351605003749 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 351605003750 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 351605003751 ABC transporter; Region: ABC_tran_2; pfam12848 351605003752 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 351605003753 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 351605003754 Predicted transcriptional regulator [Transcription]; Region: COG3905 351605003755 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 351605003756 active site 351605003757 CcdB protein; Region: CcdB; cl03380 351605003758 Post-segregation antitoxin CcdA; Region: CcdA; pfam07362 351605003759 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 351605003760 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 351605003761 DTW domain; Region: DTW; cl01221 351605003762 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 351605003763 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 351605003764 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 351605003765 homodimer interface [polypeptide binding]; other site 351605003766 oligonucleotide binding site [chemical binding]; other site 351605003767 camphor resistance protein CrcB; Provisional; Region: PRK14222 351605003768 PII-like signaling protein [Signal transduction mechanisms]; Region: COG1993 351605003769 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 351605003770 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 351605003771 TPP-binding site [chemical binding]; other site 351605003772 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 351605003773 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 351605003774 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 351605003775 E3 interaction surface; other site 351605003776 lipoyl attachment site [posttranslational modification]; other site 351605003777 e3 binding domain; Region: E3_binding; pfam02817 351605003778 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 351605003779 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 351605003780 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 351605003781 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 351605003782 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 351605003783 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 351605003784 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 351605003785 aconitate hydratase; Validated; Region: PRK07229 351605003786 Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: AcnA_Bact; cd01585 351605003787 substrate binding site [chemical binding]; other site 351605003788 ligand binding site [chemical binding]; other site 351605003789 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 351605003790 substrate binding site [chemical binding]; other site 351605003791 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 351605003792 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 351605003793 tetramer interface [polypeptide binding]; other site 351605003794 TPP-binding site [chemical binding]; other site 351605003795 heterodimer interface [polypeptide binding]; other site 351605003796 phosphorylation loop region [posttranslational modification] 351605003797 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 351605003798 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 351605003799 alpha subunit interface [polypeptide binding]; other site 351605003800 TPP binding site [chemical binding]; other site 351605003801 heterodimer interface [polypeptide binding]; other site 351605003802 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 351605003803 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 351605003804 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 351605003805 E3 interaction surface; other site 351605003806 lipoyl attachment site [posttranslational modification]; other site 351605003807 e3 binding domain; Region: E3_binding; pfam02817 351605003808 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 351605003809 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 351605003810 AAA domain; Region: AAA_32; pfam13654 351605003811 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 351605003812 Acyl carrier protein phosphodiesterase [Lipid metabolism]; Region: AcpD; COG1182 351605003813 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 351605003814 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 351605003815 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 351605003816 catalytic residues [active] 351605003817 Isochorismatase family; Region: Isochorismatase; pfam00857 351605003818 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 351605003819 catalytic triad [active] 351605003820 conserved cis-peptide bond; other site 351605003821 BRO family, N-terminal domain; Region: Bro-N; smart01040 351605003822 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 351605003823 active site 351605003824 NTP binding site [chemical binding]; other site 351605003825 metal binding triad [ion binding]; metal-binding site 351605003826 antibiotic binding site [chemical binding]; other site 351605003827 Fic family protein [Function unknown]; Region: COG3177 351605003828 Fic/DOC family; Region: Fic; pfam02661 351605003829 Bacterial protein of unknown function (DUF977); Region: DUF977; pfam06163 351605003830 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 351605003831 GAF domain; Region: GAF_3; pfam13492 351605003832 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 351605003833 Walker A motif; other site 351605003834 ATP binding site [chemical binding]; other site 351605003835 Walker B motif; other site 351605003836 arginine finger; other site 351605003837 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 351605003838 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 351605003839 Probable Catalytic site; other site 351605003840 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 351605003841 Response regulator receiver domain; Region: Response_reg; pfam00072 351605003842 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605003843 active site 351605003844 phosphorylation site [posttranslational modification] 351605003845 intermolecular recognition site; other site 351605003846 dimerization interface [polypeptide binding]; other site 351605003847 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 351605003848 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 351605003849 putative [4Fe-4S] binding site [ion binding]; other site 351605003850 putative molybdopterin cofactor binding site [chemical binding]; other site 351605003851 The MopB_CT_3 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_3; cd02786 351605003852 putative molybdopterin cofactor binding site; other site 351605003853 Cache domain; Region: Cache_1; pfam02743 351605003854 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 351605003855 PAS domain S-box; Region: sensory_box; TIGR00229 351605003856 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 351605003857 putative active site [active] 351605003858 heme pocket [chemical binding]; other site 351605003859 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 351605003860 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 351605003861 putative active site [active] 351605003862 heme pocket [chemical binding]; other site 351605003863 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 351605003864 dimer interface [polypeptide binding]; other site 351605003865 phosphorylation site [posttranslational modification] 351605003866 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 351605003867 ATP binding site [chemical binding]; other site 351605003868 Mg2+ binding site [ion binding]; other site 351605003869 G-X-G motif; other site 351605003870 Chromate transporter; Region: Chromate_transp; pfam02417 351605003871 Chromate transporter; Region: Chromate_transp; pfam02417 351605003872 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 351605003873 phosphoenolpyruvate synthase; Validated; Region: PRK06464 351605003874 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 351605003875 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 351605003876 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 351605003877 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 351605003878 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 351605003879 putative active site [active] 351605003880 putative NTP binding site [chemical binding]; other site 351605003881 putative nucleic acid binding site [nucleotide binding]; other site 351605003882 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 351605003883 DevC protein; Region: devC; TIGR01185 351605003884 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 351605003885 FtsX-like permease family; Region: FtsX; pfam02687 351605003886 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 351605003887 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 351605003888 Walker A/P-loop; other site 351605003889 ATP binding site [chemical binding]; other site 351605003890 Q-loop/lid; other site 351605003891 ABC transporter signature motif; other site 351605003892 Walker B; other site 351605003893 D-loop; other site 351605003894 H-loop/switch region; other site 351605003895 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 351605003896 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 351605003897 Protein of unknown function (DUF1622); Region: DUF1622; pfam07784 351605003898 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 351605003899 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 351605003900 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 351605003901 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 351605003902 FeS/SAM binding site; other site 351605003903 Protein of unknown function (DUF4080); Region: DUF4080; pfam13311 351605003904 Motility quorum-sensing regulator (MqsR); Region: MqsR; cd12869 351605003905 peptide binding site [polypeptide binding]; other site 351605003906 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 351605003907 YgiT-type zinc finger domain; Region: YgiT_finger; TIGR03831 351605003908 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 351605003909 non-specific DNA binding site [nucleotide binding]; other site 351605003910 salt bridge; other site 351605003911 sequence-specific DNA binding site [nucleotide binding]; other site 351605003912 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 351605003913 Radical SAM superfamily; Region: Radical_SAM; pfam04055 351605003914 FeS/SAM binding site; other site 351605003915 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 351605003916 heme-binding residues [chemical binding]; other site 351605003917 acylphosphatase; Provisional; Region: PRK14438 351605003918 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 351605003919 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 351605003920 nucleotide binding pocket [chemical binding]; other site 351605003921 K-X-D-G motif; other site 351605003922 catalytic site [active] 351605003923 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 351605003924 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 351605003925 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 351605003926 Dimer interface [polypeptide binding]; other site 351605003927 BRCT sequence motif; other site 351605003928 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 351605003929 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 351605003930 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 351605003931 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 351605003932 dimer interface [polypeptide binding]; other site 351605003933 conserved gate region; other site 351605003934 ABC-ATPase subunit interface; other site 351605003935 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 351605003936 dimer interface [polypeptide binding]; other site 351605003937 conserved gate region; other site 351605003938 putative PBP binding loops; other site 351605003939 ABC-ATPase subunit interface; other site 351605003940 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 351605003941 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 351605003942 Walker A/P-loop; other site 351605003943 ATP binding site [chemical binding]; other site 351605003944 Q-loop/lid; other site 351605003945 ABC transporter signature motif; other site 351605003946 Walker B; other site 351605003947 D-loop; other site 351605003948 H-loop/switch region; other site 351605003949 TOBE domain; Region: TOBE_2; pfam08402 351605003950 Family description; Region: VCBS; pfam13517 351605003951 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 351605003952 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 351605003953 substrate binding pocket [chemical binding]; other site 351605003954 membrane-bound complex binding site; other site 351605003955 hinge residues; other site 351605003956 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 351605003957 dimer interface [polypeptide binding]; other site 351605003958 phosphorylation site [posttranslational modification] 351605003959 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 351605003960 ATP binding site [chemical binding]; other site 351605003961 Mg2+ binding site [ion binding]; other site 351605003962 G-X-G motif; other site 351605003963 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 351605003964 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605003965 active site 351605003966 phosphorylation site [posttranslational modification] 351605003967 intermolecular recognition site; other site 351605003968 dimerization interface [polypeptide binding]; other site 351605003969 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 351605003970 Walker A motif; other site 351605003971 ATP binding site [chemical binding]; other site 351605003972 Walker B motif; other site 351605003973 arginine finger; other site 351605003974 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 351605003975 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 351605003976 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 351605003977 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 351605003978 Haem-binding domain; Region: Haem_bd; pfam14376 351605003979 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 351605003980 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 351605003981 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 351605003982 heme-binding residues [chemical binding]; other site 351605003983 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 351605003984 TPR repeat; Region: TPR_11; pfam13414 351605003985 binding surface 351605003986 TPR motif; other site 351605003987 TPR repeat; Region: TPR_11; pfam13414 351605003988 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 351605003989 binding surface 351605003990 TPR motif; other site 351605003991 Tetratricopeptide repeat; Region: TPR_16; pfam13432 351605003992 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 351605003993 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 351605003994 Ligand binding site; other site 351605003995 Putative Catalytic site; other site 351605003996 DXD motif; other site 351605003997 Hemerythrin; Region: Hemerythrin; cd12107 351605003998 Fe binding site [ion binding]; other site 351605003999 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 351605004000 Part of AAA domain; Region: AAA_19; pfam13245 351605004001 Family description; Region: UvrD_C_2; pfam13538 351605004002 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605004003 Response regulator receiver domain; Region: Response_reg; pfam00072 351605004004 active site 351605004005 phosphorylation site [posttranslational modification] 351605004006 intermolecular recognition site; other site 351605004007 dimerization interface [polypeptide binding]; other site 351605004008 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 351605004009 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 351605004010 non-specific DNA binding site [nucleotide binding]; other site 351605004011 salt bridge; other site 351605004012 sequence-specific DNA binding site [nucleotide binding]; other site 351605004013 Globin domain present in Globin-Coupled-Sensors (GCS). These domains detect changes in intracellular concentrations of oxygen, carbon monoxyde, or nitrous oxide, which result in aerotaxis and/or gene regulation. One subgroup, the HemATs, are aerotactic...; Region: sensor_globin; cd01068 351605004014 heme-binding site [chemical binding]; other site 351605004015 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 351605004016 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 351605004017 dimer interface [polypeptide binding]; other site 351605004018 decamer (pentamer of dimers) interface [polypeptide binding]; other site 351605004019 catalytic triad [active] 351605004020 peroxidatic and resolving cysteines [active] 351605004021 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 351605004022 substrate binding site [chemical binding]; other site 351605004023 S-adenosylmethionine synthetase; Validated; Region: PRK05250 351605004024 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 351605004025 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 351605004026 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 351605004027 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 351605004028 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 351605004029 putative active site [active] 351605004030 putative NTP binding site [chemical binding]; other site 351605004031 putative nucleic acid binding site [nucleotide binding]; other site 351605004032 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 351605004033 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 351605004034 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605004035 active site 351605004036 phosphorylation site [posttranslational modification] 351605004037 intermolecular recognition site; other site 351605004038 dimerization interface [polypeptide binding]; other site 351605004039 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 351605004040 DNA binding site [nucleotide binding] 351605004041 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 351605004042 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 351605004043 dimer interface [polypeptide binding]; other site 351605004044 phosphorylation site [posttranslational modification] 351605004045 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 351605004046 ATP binding site [chemical binding]; other site 351605004047 Mg2+ binding site [ion binding]; other site 351605004048 G-X-G motif; other site 351605004049 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 351605004050 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 351605004051 DNA binding residues [nucleotide binding] 351605004052 dimer interface [polypeptide binding]; other site 351605004053 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 351605004054 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 351605004055 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 351605004056 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 351605004057 Protein of unknown function, DUF485; Region: DUF485; pfam04341 351605004058 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 351605004059 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 351605004060 Na binding site [ion binding]; other site 351605004061 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 351605004062 B12 binding site [chemical binding]; other site 351605004063 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 351605004064 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 351605004065 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of...; Region: MM_CoA_mutase; cl00817 351605004066 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 351605004067 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 351605004068 Nitroreductase-like family 3. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_3; cd02139 351605004069 putative FMN binding site [chemical binding]; other site 351605004070 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 351605004071 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 351605004072 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 351605004073 active site 351605004074 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 351605004075 dimer interface [polypeptide binding]; other site 351605004076 Glutamine amidotransferase domain; Region: GATase_6; pfam13522 351605004077 active site 351605004078 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 351605004079 Ligand Binding Site [chemical binding]; other site 351605004080 Molecular Tunnel; other site 351605004081 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 351605004082 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 351605004083 Coenzyme A binding pocket [chemical binding]; other site 351605004084 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 351605004085 Phage Tail Collar Domain; Region: Collar; pfam07484 351605004086 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 351605004087 Phage Tail Collar Domain; Region: Collar; pfam07484 351605004088 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 351605004089 Phage Tail Collar Domain; Region: Collar; pfam07484 351605004090 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 351605004091 active site 351605004092 dimer interface [polypeptide binding]; other site 351605004093 Glutamine amidotransferase domain; Region: GATase_6; pfam13522 351605004094 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 351605004095 Ligand Binding Site [chemical binding]; other site 351605004096 Molecular Tunnel; other site 351605004097 HprK-related kinase A; Region: HprK_rel_A; TIGR04352 351605004098 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 351605004099 G1 box; other site 351605004100 GTP/Mg2+ binding site [chemical binding]; other site 351605004101 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 351605004102 sulfotransferase; Region: PLN02164 351605004103 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 351605004104 Transglutaminase-like superfamily; Region: Transglut_core3; pfam13471 351605004105 EamA-like transporter family; Region: EamA; cl17759 351605004106 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 351605004107 non-specific DNA binding site [nucleotide binding]; other site 351605004108 salt bridge; other site 351605004109 sequence-specific DNA binding site [nucleotide binding]; other site 351605004110 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 351605004111 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 351605004112 antitoxin MqsA for MqsR toxin; Region: MqsA; cd12870 351605004113 toxin interface [polypeptide binding]; other site 351605004114 Zn binding site [ion binding]; other site 351605004115 hybrid cluster protein; Provisional; Region: PRK05290 351605004116 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 351605004117 ACS interaction site; other site 351605004118 CODH interaction site; other site 351605004119 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 351605004120 hybrid metal cluster; other site 351605004121 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 351605004122 S-adenosylmethionine binding site [chemical binding]; other site 351605004123 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 351605004124 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 351605004125 S-adenosylmethionine binding site [chemical binding]; other site 351605004126 Uncharacterized conserved protein [Function unknown]; Region: COG1624 351605004127 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 351605004128 YbbR-like protein; Region: YbbR; pfam07949 351605004129 YbbR-like protein; Region: YbbR; pfam07949 351605004130 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 351605004131 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 351605004132 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 351605004133 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 351605004134 NlpC/P60 family; Region: NLPC_P60; pfam00877 351605004135 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 351605004136 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 351605004137 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 351605004138 FeS/SAM binding site; other site 351605004139 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 351605004140 TPR motif; other site 351605004141 binding surface 351605004142 Tetratricopeptide repeat; Region: TPR_16; pfam13432 351605004143 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 351605004144 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 351605004145 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 351605004146 Response regulator receiver domain; Region: Response_reg; pfam00072 351605004147 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605004148 active site 351605004149 phosphorylation site [posttranslational modification] 351605004150 intermolecular recognition site; other site 351605004151 dimerization interface [polypeptide binding]; other site 351605004152 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 351605004153 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 351605004154 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 351605004155 dimerization interface [polypeptide binding]; other site 351605004156 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 351605004157 putative active site [active] 351605004158 heme pocket [chemical binding]; other site 351605004159 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 351605004160 dimer interface [polypeptide binding]; other site 351605004161 phosphorylation site [posttranslational modification] 351605004162 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 351605004163 ATP binding site [chemical binding]; other site 351605004164 Mg2+ binding site [ion binding]; other site 351605004165 G-X-G motif; other site 351605004166 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 351605004167 DNA binding residues [nucleotide binding] 351605004168 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 351605004169 MarR family; Region: MarR; pfam01047 351605004170 MarR family; Region: MarR_2; cl17246 351605004171 Short C-terminal domain; Region: SHOCT; pfam09851 351605004172 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 351605004173 4Fe-4S binding domain; Region: Fer4_5; pfam12801 351605004174 4Fe-4S binding domain; Region: Fer4_5; pfam12801 351605004175 Ferredoxin [Energy production and conversion]; Region: COG1146 351605004176 4Fe-4S binding domain; Region: Fer4; cl02805 351605004177 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 351605004178 Transposase; Region: DDE_Tnp_ISL3; pfam01610 351605004179 arsenical pump-driving ATPase; Region: arsen_driv_ArsA; TIGR04291 351605004180 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 351605004181 DTAP/Switch II; other site 351605004182 Switch I; other site 351605004183 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 351605004184 DTAP/Switch II; other site 351605004185 Switch I; other site 351605004186 Arsenical resistance operon trans-acting repressor ArsD; Region: ArsD; pfam06953 351605004187 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 351605004188 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 351605004189 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 351605004190 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 351605004191 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 351605004192 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 351605004193 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 351605004194 ABC1 family; Region: ABC1; cl17513 351605004195 Uncharacterized conserved protein [Function unknown]; Region: COG3937 351605004196 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 351605004197 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases and ATP sulphurylases. The domain forms a apha/beta/apha fold which binds to Adenosine group; Region: Alpha_ANH_like; cd01986 351605004198 Ligand Binding Site [chemical binding]; other site 351605004199 Archease protein family (MTH1598/TM1083); Region: Archease; pfam01951 351605004200 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 351605004201 hypothetical protein; Reviewed; Region: PRK09588 351605004202 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 351605004203 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 351605004204 ATP binding site [chemical binding]; other site 351605004205 Mg++ binding site [ion binding]; other site 351605004206 motif III; other site 351605004207 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 351605004208 nucleotide binding region [chemical binding]; other site 351605004209 ATP-binding site [chemical binding]; other site 351605004210 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 351605004211 putative RNA binding site [nucleotide binding]; other site 351605004212 Protein of unknown function (DUF3680); Region: DUF3680; pfam12441 351605004213 Protein of unknown function (DUF497); Region: DUF497; pfam04365 351605004214 NLPC_P60 stabilising domain, N term; Region: N_NLPC_P60; pfam12912 351605004215 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 351605004216 SH3 domain of SH3b2 type; Region: SH3_7; pfam12914 351605004217 NlpC/P60 family; Region: NLPC_P60; cl17555 351605004218 Transcriptional regulator [Transcription]; Region: LysR; COG0583 351605004219 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 351605004220 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 351605004221 dimerization interface [polypeptide binding]; other site 351605004222 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 351605004223 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 351605004224 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 351605004225 active site 351605004226 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 351605004227 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 351605004228 DNA binding residues [nucleotide binding] 351605004229 dimer interface [polypeptide binding]; other site 351605004230 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 351605004231 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 351605004232 putative active site [active] 351605004233 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 351605004234 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 351605004235 FRG domain; Region: FRG; pfam08867 351605004236 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cl00251 351605004237 Preprotein binding site; other site 351605004238 SecA binding site; other site 351605004239 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 351605004240 YgiT-type zinc finger domain; Region: YgiT_finger; TIGR03831 351605004241 Motility quorum-sensing regulator (MqsR); Region: MqsR; cd12869 351605004242 peptide binding site [polypeptide binding]; other site 351605004243 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 351605004244 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 351605004245 Walker A motif; other site 351605004246 ATP binding site [chemical binding]; other site 351605004247 Walker B motif; other site 351605004248 arginine finger; other site 351605004249 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 351605004250 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 351605004251 Walker A motif; other site 351605004252 ATP binding site [chemical binding]; other site 351605004253 Walker B motif; other site 351605004254 arginine finger; other site 351605004255 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 351605004256 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 351605004257 RuvA N terminal domain; Region: RuvA_N; pfam01330 351605004258 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 351605004259 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 351605004260 active site 351605004261 putative DNA-binding cleft [nucleotide binding]; other site 351605004262 dimer interface [polypeptide binding]; other site 351605004263 hypothetical protein; Validated; Region: PRK00110 351605004264 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 351605004265 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 351605004266 Transcriptional regulator [Transcription]; Region: IclR; COG1414 351605004267 Bacterial transcriptional regulator; Region: IclR; pfam01614 351605004268 Protein of unknown function, DUF485; Region: DUF485; pfam04341 351605004269 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 351605004270 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 351605004271 Na binding site [ion binding]; other site 351605004272 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 351605004273 metal binding triad; other site 351605004274 Putative nucleotidyltransferase substrate binding domain; Region: DUF294_C; pfam10335 351605004275 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 351605004276 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 351605004277 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 351605004278 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 351605004279 dimerization interface [polypeptide binding]; other site 351605004280 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 351605004281 dimer interface [polypeptide binding]; other site 351605004282 phosphorylation site [posttranslational modification] 351605004283 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 351605004284 ATP binding site [chemical binding]; other site 351605004285 Mg2+ binding site [ion binding]; other site 351605004286 G-X-G motif; other site 351605004287 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 351605004288 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 351605004289 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 351605004290 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 351605004291 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605004292 active site 351605004293 phosphorylation site [posttranslational modification] 351605004294 intermolecular recognition site; other site 351605004295 dimerization interface [polypeptide binding]; other site 351605004296 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 351605004297 Walker A motif; other site 351605004298 ATP binding site [chemical binding]; other site 351605004299 Walker B motif; other site 351605004300 arginine finger; other site 351605004301 hypothetical protein; Provisional; Region: PRK10621 351605004302 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 351605004303 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 351605004304 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 351605004305 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 351605004306 putative RNA binding site [nucleotide binding]; other site 351605004307 SlyX; Region: SlyX; pfam04102 351605004308 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 351605004309 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 351605004310 active site 351605004311 catalytic tetrad [active] 351605004312 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 351605004313 4Fe-4S binding domain; Region: Fer4; pfam00037 351605004314 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 351605004315 toxin interface [polypeptide binding]; other site 351605004316 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 351605004317 YgiT-type zinc finger domain; Region: YgiT_finger; TIGR03831 351605004318 Zn binding site [ion binding]; other site 351605004319 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 351605004320 non-specific DNA binding site [nucleotide binding]; other site 351605004321 salt bridge; other site 351605004322 sequence-specific DNA binding site [nucleotide binding]; other site 351605004323 Motility quorum-sensing regulator (MqsR); Region: MqsR; cd12869 351605004324 peptide binding site [polypeptide binding]; other site 351605004325 Antitoxin of toxin-antitoxin stability system N-terminal; Region: RelB_N; pfam12910 351605004326 toxin-antitoxin system, toxin component, Txe/YoeB family; Region: toxin_Txe_YoeB; TIGR02116 351605004327 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 351605004328 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 351605004329 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 351605004330 putative active site; other site 351605004331 catalytic triad [active] 351605004332 putative dimer interface [polypeptide binding]; other site 351605004333 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 351605004334 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 351605004335 S-adenosylmethionine synthetase; Provisional; Region: PRK04439 351605004336 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 351605004337 Sel1-like repeats; Region: SEL1; smart00671 351605004338 Sel1-like repeats; Region: SEL1; smart00671 351605004339 Sel1-like repeats; Region: SEL1; smart00671 351605004340 Sel1-like repeats; Region: SEL1; smart00671 351605004341 Sel1-like repeats; Region: SEL1; smart00671 351605004342 Protein of unknown function (DUF503); Region: DUF503; pfam04456 351605004343 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 351605004344 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 351605004345 intracellular protease, PfpI family; Region: PfpI; TIGR01382 351605004346 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 351605004347 proposed catalytic triad [active] 351605004348 conserved cys residue [active] 351605004349 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 351605004350 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 351605004351 HlyD family secretion protein; Region: HlyD_3; pfam13437 351605004352 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 351605004353 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 351605004354 Walker A/P-loop; other site 351605004355 ATP binding site [chemical binding]; other site 351605004356 Q-loop/lid; other site 351605004357 ABC transporter signature motif; other site 351605004358 Walker B; other site 351605004359 D-loop; other site 351605004360 H-loop/switch region; other site 351605004361 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 351605004362 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 351605004363 FtsX-like permease family; Region: FtsX; pfam02687 351605004364 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 351605004365 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 351605004366 FtsX-like permease family; Region: FtsX; pfam02687 351605004367 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 351605004368 Chorismate mutase type II; Region: CM_2; pfam01817 351605004369 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 351605004370 Prephenate dehydratase; Region: PDT; pfam00800 351605004371 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 351605004372 putative L-Phe binding site [chemical binding]; other site 351605004373 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 351605004374 prephenate dehydrogenase; Validated; Region: PRK08507 351605004375 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 351605004376 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 351605004377 hinge; other site 351605004378 active site 351605004379 cytidylate kinase; Provisional; Region: cmk; PRK00023 351605004380 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 351605004381 CMP-binding site; other site 351605004382 The sites determining sugar specificity; other site 351605004383 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 351605004384 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 351605004385 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 351605004386 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 351605004387 RNA binding site [nucleotide binding]; other site 351605004388 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 351605004389 RNA binding site [nucleotide binding]; other site 351605004390 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 351605004391 RNA binding site [nucleotide binding]; other site 351605004392 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 351605004393 RNA binding site [nucleotide binding]; other site 351605004394 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 351605004395 RNA binding site [nucleotide binding]; other site 351605004396 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 351605004397 RNA binding site [nucleotide binding]; other site 351605004398 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 351605004399 IHF dimer interface [polypeptide binding]; other site 351605004400 IHF - DNA interface [nucleotide binding]; other site 351605004401 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 351605004402 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 351605004403 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 351605004404 putative active site [active] 351605004405 putative NTP binding site [chemical binding]; other site 351605004406 putative nucleic acid binding site [nucleotide binding]; other site 351605004407 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 351605004408 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 351605004409 RHS Repeat; Region: RHS_repeat; pfam05593 351605004410 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 351605004411 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 351605004412 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 351605004413 RHS Repeat; Region: RHS_repeat; pfam05593 351605004414 RHS Repeat; Region: RHS_repeat; pfam05593 351605004415 RHS Repeat; Region: RHS_repeat; pfam05593 351605004416 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 351605004417 RHS Repeat; Region: RHS_repeat; pfam05593 351605004418 RHS Repeat; Region: RHS_repeat; cl11982 351605004419 RHS Repeat; Region: RHS_repeat; pfam05593 351605004420 RHS Repeat; Region: RHS_repeat; pfam05593 351605004421 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 351605004422 Prokaryotic phospholipase A2; Region: Phospholip_A2_3; pfam09056 351605004423 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 351605004424 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 351605004425 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 351605004426 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 351605004427 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 351605004428 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 351605004429 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 351605004430 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 351605004431 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 351605004432 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 351605004433 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 351605004434 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 351605004435 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 351605004436 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 351605004437 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 351605004438 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 351605004439 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 351605004440 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 351605004441 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 351605004442 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 351605004443 non-specific DNA binding site [nucleotide binding]; other site 351605004444 salt bridge; other site 351605004445 sequence-specific DNA binding site [nucleotide binding]; other site 351605004446 HipA N-terminal domain; Region: Couple_hipA; pfam13657 351605004447 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 351605004448 HipA-like N-terminal domain; Region: HipA_N; pfam07805 351605004449 HipA-like C-terminal domain; Region: HipA_C; pfam07804 351605004450 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 351605004451 PemK-like protein; Region: PemK; pfam02452 351605004452 HsdM N-terminal domain; Region: HsdM_N; pfam12161 351605004453 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 351605004454 Methyltransferase domain; Region: Methyltransf_26; pfam13659 351605004455 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 351605004456 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 351605004457 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 351605004458 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 351605004459 DEAD-like helicases superfamily; Region: DEXDc; smart00487 351605004460 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 351605004461 ATP binding site [chemical binding]; other site 351605004462 putative Mg++ binding site [ion binding]; other site 351605004463 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 351605004464 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 351605004465 Walker A motif; other site 351605004466 ATP binding site [chemical binding]; other site 351605004467 Walker B motif; other site 351605004468 arginine finger; other site 351605004469 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 351605004470 putative active site [active] 351605004471 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 351605004472 hypothetical protein; Provisional; Region: PRK05170 351605004473 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 351605004474 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 351605004475 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 351605004476 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 351605004477 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 351605004478 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 351605004479 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 351605004480 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 351605004481 Ligand Binding Site [chemical binding]; other site 351605004482 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 351605004483 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 351605004484 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 351605004485 catalytic residue [active] 351605004486 Rrf2 family protein; Region: rrf2_super; TIGR00738 351605004487 Transcriptional regulator; Region: Rrf2; cl17282 351605004488 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 351605004489 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 351605004490 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 351605004491 trimer interface [polypeptide binding]; other site 351605004492 active site 351605004493 substrate binding site [chemical binding]; other site 351605004494 CoA binding site [chemical binding]; other site 351605004495 Protein of unknown function (DUF972); Region: DUF972; pfam06156 351605004496 Response regulator receiver domain; Region: Response_reg; pfam00072 351605004497 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605004498 active site 351605004499 phosphorylation site [posttranslational modification] 351605004500 intermolecular recognition site; other site 351605004501 dimerization interface [polypeptide binding]; other site 351605004502 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 351605004503 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 351605004504 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 351605004505 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 351605004506 putative active site [active] 351605004507 heme pocket [chemical binding]; other site 351605004508 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 351605004509 dimer interface [polypeptide binding]; other site 351605004510 phosphorylation site [posttranslational modification] 351605004511 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 351605004512 ATP binding site [chemical binding]; other site 351605004513 Mg2+ binding site [ion binding]; other site 351605004514 G-X-G motif; other site 351605004515 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 351605004516 active site 351605004517 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 351605004518 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 351605004519 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 351605004520 putative active site [active] 351605004521 putative NTP binding site [chemical binding]; other site 351605004522 putative nucleic acid binding site [nucleotide binding]; other site 351605004523 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 351605004524 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 351605004525 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 351605004526 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 351605004527 C-terminal peptidase (prc); Region: prc; TIGR00225 351605004528 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 351605004529 protein binding site [polypeptide binding]; other site 351605004530 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 351605004531 Catalytic dyad [active] 351605004532 Uncharacterized ACR, YagE family COG1723; Region: DUF155; pfam02582 351605004533 SAP domain; Region: SAP; cl02640 351605004534 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 351605004535 PBP superfamily domain; Region: PBP_like_2; cl17296 351605004536 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 351605004537 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 351605004538 putative active site [active] 351605004539 putative NTP binding site [chemical binding]; other site 351605004540 putative nucleic acid binding site [nucleotide binding]; other site 351605004541 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 351605004542 PBP superfamily domain; Region: PBP_like_2; cl17296 351605004543 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 351605004544 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 351605004545 anti sigma factor interaction site; other site 351605004546 regulatory phosphorylation site [posttranslational modification]; other site 351605004547 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 351605004548 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 351605004549 FOG: CBS domain [General function prediction only]; Region: COG0517 351605004550 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 351605004551 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 351605004552 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 351605004553 PhoU domain; Region: PhoU; pfam01895 351605004554 PhoU domain; Region: PhoU; pfam01895 351605004555 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14256 351605004556 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 351605004557 Walker A/P-loop; other site 351605004558 ATP binding site [chemical binding]; other site 351605004559 Q-loop/lid; other site 351605004560 ABC transporter signature motif; other site 351605004561 Walker B; other site 351605004562 D-loop; other site 351605004563 H-loop/switch region; other site 351605004564 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 351605004565 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 351605004566 dimer interface [polypeptide binding]; other site 351605004567 conserved gate region; other site 351605004568 putative PBP binding loops; other site 351605004569 ABC-ATPase subunit interface; other site 351605004570 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 351605004571 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 351605004572 ABC-ATPase subunit interface; other site 351605004573 PBP superfamily domain; Region: PBP_like_2; cl17296 351605004574 Phosphate-starvation-inducible E; Region: PsiE; pfam06146 351605004575 Uncharacterized conserved protein [Function unknown]; Region: COG2928 351605004576 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 351605004577 putative chaperone; Provisional; Region: PRK11678 351605004578 nucleotide binding site [chemical binding]; other site 351605004579 putative NEF/HSP70 interaction site [polypeptide binding]; other site 351605004580 SBD interface [polypeptide binding]; other site 351605004581 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 351605004582 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 351605004583 Coenzyme A binding pocket [chemical binding]; other site 351605004584 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 351605004585 putative deacylase active site [active] 351605004586 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 351605004587 putative active site [active] 351605004588 putative metal binding residues [ion binding]; other site 351605004589 signature motif; other site 351605004590 putative triphosphate binding site [ion binding]; other site 351605004591 dimer interface [polypeptide binding]; other site 351605004592 Uncharacterized ArCR, COG2043; Region: DUF169; pfam02596 351605004593 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 351605004594 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 351605004595 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 351605004596 Signal peptidase (SPase) II; Region: Peptidase_A8; pfam01252 351605004597 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 351605004598 putative homodimer interface [polypeptide binding]; other site 351605004599 putative homotetramer interface [polypeptide binding]; other site 351605004600 putative allosteric switch controlling residues; other site 351605004601 putative metal binding site [ion binding]; other site 351605004602 putative homodimer-homodimer interface [polypeptide binding]; other site 351605004603 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 351605004604 metal-binding site [ion binding] 351605004605 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 351605004606 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 351605004607 metal-binding site [ion binding] 351605004608 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 351605004609 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 351605004610 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 351605004611 putative hydrolase; Provisional; Region: PRK11460 351605004612 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 351605004613 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 351605004614 NAD(P) binding site [chemical binding]; other site 351605004615 active site 351605004616 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed; Region: PRK00087 351605004617 DNA polymerase III subunit alpha; Reviewed; Region: PRK07373 351605004618 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 351605004619 classical (c) SDRs; Region: SDR_c; cd05233 351605004620 NAD(P) binding site [chemical binding]; other site 351605004621 active site 351605004622 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 351605004623 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 351605004624 Transposase; Region: DDE_Tnp_ISL3; pfam01610 351605004625 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 351605004626 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 351605004627 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 351605004628 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; pfam09989 351605004629 Transposase; Region: HTH_Tnp_1; cl17663 351605004630 Homeodomain-like domain; Region: HTH_32; pfam13565 351605004631 Integrase core domain; Region: rve; pfam00665 351605004632 Integrase core domain; Region: rve_3; pfam13683 351605004633 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 351605004634 Histidine kinase; Region: HisKA_3; pfam07730 351605004635 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 351605004636 ATP binding site [chemical binding]; other site 351605004637 Mg2+ binding site [ion binding]; other site 351605004638 G-X-G motif; other site 351605004639 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 351605004640 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605004641 active site 351605004642 phosphorylation site [posttranslational modification] 351605004643 intermolecular recognition site; other site 351605004644 dimerization interface [polypeptide binding]; other site 351605004645 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 351605004646 dimerization interface [polypeptide binding]; other site 351605004647 DNA binding residues [nucleotide binding] 351605004648 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 351605004649 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 351605004650 PAS fold; Region: PAS_4; pfam08448 351605004651 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 351605004652 Response regulator receiver domain; Region: Response_reg; pfam00072 351605004653 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605004654 active site 351605004655 phosphorylation site [posttranslational modification] 351605004656 intermolecular recognition site; other site 351605004657 dimerization interface [polypeptide binding]; other site 351605004658 PAS domain; Region: PAS_9; pfam13426 351605004659 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 351605004660 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 351605004661 dimer interface [polypeptide binding]; other site 351605004662 phosphorylation site [posttranslational modification] 351605004663 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 351605004664 ATP binding site [chemical binding]; other site 351605004665 Mg2+ binding site [ion binding]; other site 351605004666 G-X-G motif; other site 351605004667 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 351605004668 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605004669 active site 351605004670 phosphorylation site [posttranslational modification] 351605004671 intermolecular recognition site; other site 351605004672 dimerization interface [polypeptide binding]; other site 351605004673 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 351605004674 PAS domain; Region: PAS_9; pfam13426 351605004675 putative active site [active] 351605004676 heme pocket [chemical binding]; other site 351605004677 PAS domain S-box; Region: sensory_box; TIGR00229 351605004678 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 351605004679 putative active site [active] 351605004680 heme pocket [chemical binding]; other site 351605004681 GAF domain; Region: GAF_2; pfam13185 351605004682 GAF domain; Region: GAF; pfam01590 351605004683 PAS domain S-box; Region: sensory_box; TIGR00229 351605004684 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 351605004685 putative active site [active] 351605004686 heme pocket [chemical binding]; other site 351605004687 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 351605004688 dimer interface [polypeptide binding]; other site 351605004689 phosphorylation site [posttranslational modification] 351605004690 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 351605004691 ATP binding site [chemical binding]; other site 351605004692 Mg2+ binding site [ion binding]; other site 351605004693 G-X-G motif; other site 351605004694 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 351605004695 dimerization interface [polypeptide binding]; other site 351605004696 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 351605004697 PAS domain; Region: PAS_9; pfam13426 351605004698 putative active site [active] 351605004699 heme pocket [chemical binding]; other site 351605004700 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 351605004701 PAS domain; Region: PAS_9; pfam13426 351605004702 putative active site [active] 351605004703 heme pocket [chemical binding]; other site 351605004704 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 351605004705 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 351605004706 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 351605004707 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 351605004708 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 351605004709 MarR family; Region: MarR; pfam01047 351605004710 Conserved hypothetical protein (DUF2461); Region: DUF2461; pfam09365 351605004711 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 351605004712 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 351605004713 active site residue [active] 351605004714 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 351605004715 active site residue [active] 351605004716 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 351605004717 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 351605004718 active site residue [active] 351605004719 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 351605004720 active site residue [active] 351605004721 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 351605004722 Cysteine-rich domain; Region: CCG; pfam02754 351605004723 Uncharacterized conserved protein [Function unknown]; Region: COG0398 351605004724 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 351605004725 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 351605004726 Putative Catalytic site; other site 351605004727 DXD motif; other site 351605004728 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 351605004729 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 351605004730 active site residue [active] 351605004731 Rhodanese Homology Domain; Region: RHOD; smart00450 351605004732 active site residue [active] 351605004733 radical SAM/Cys-rich domain protein; Region: rSAM_SeCys; TIGR04167 351605004734 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 351605004735 FeS/SAM binding site; other site 351605004736 Protein of unknown function (DUF3641); Region: DUF3641; pfam12345 351605004737 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 351605004738 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 351605004739 active site 351605004740 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 351605004741 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 351605004742 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 351605004743 dimer interface [polypeptide binding]; other site 351605004744 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 351605004745 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 351605004746 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 351605004747 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 351605004748 dimerization interface [polypeptide binding]; other site 351605004749 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 351605004750 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 351605004751 putative active site [active] 351605004752 heme pocket [chemical binding]; other site 351605004753 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 351605004754 dimer interface [polypeptide binding]; other site 351605004755 phosphorylation site [posttranslational modification] 351605004756 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 351605004757 ATP binding site [chemical binding]; other site 351605004758 Mg2+ binding site [ion binding]; other site 351605004759 G-X-G motif; other site 351605004760 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 351605004761 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605004762 active site 351605004763 phosphorylation site [posttranslational modification] 351605004764 intermolecular recognition site; other site 351605004765 dimerization interface [polypeptide binding]; other site 351605004766 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 351605004767 DNA binding site [nucleotide binding] 351605004768 AMP-binding domain protein; Validated; Region: PRK08315 351605004769 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 351605004770 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 351605004771 acyl-activating enzyme (AAE) consensus motif; other site 351605004772 acyl-activating enzyme (AAE) consensus motif; other site 351605004773 putative AMP binding site [chemical binding]; other site 351605004774 putative active site [active] 351605004775 putative CoA binding site [chemical binding]; other site 351605004776 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 351605004777 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 351605004778 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 351605004779 active site 351605004780 Saccharomyces cerevisiae (Sc) citrate synthase (CS)-like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) with oxaloacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). Some CS...; Region: ScCS-like; cd06103 351605004781 citrate (Si)-synthase, eukaryotic; Region: cit_synth_euk; TIGR01793 351605004782 dimer interface [polypeptide binding]; other site 351605004783 active site 351605004784 coenzyme A binding site [chemical binding]; other site 351605004785 citrylCoA binding site [chemical binding]; other site 351605004786 oxalacetate/citrate binding site [chemical binding]; other site 351605004787 catalytic triad [active] 351605004788 AmmeMemoRadiSam system protein A; Region: AmmeMemoSam_A; TIGR04335 351605004789 AMMECR1; Region: AMMECR1; pfam01871 351605004790 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 351605004791 Uncharacterized ALDH (y4uC) with similarity to Tortula ruralis aldehyde dehydrogenase ALDH21A1; Region: ALDH_y4uC; cd07149 351605004792 NAD(P) binding site [chemical binding]; other site 351605004793 catalytic residues [active] 351605004794 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 351605004795 active site 351605004796 multimer interface [polypeptide binding]; other site 351605004797 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14463 351605004798 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 351605004799 FeS/SAM binding site; other site 351605004800 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 351605004801 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 351605004802 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 351605004803 Walker A motif; other site 351605004804 ATP binding site [chemical binding]; other site 351605004805 Walker B motif; other site 351605004806 DDE superfamily endonuclease; Region: DDE_5; pfam13546 351605004807 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 351605004808 S-adenosylmethionine binding site [chemical binding]; other site 351605004809 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 351605004810 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 351605004811 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 351605004812 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 351605004813 acyl-activating enzyme (AAE) consensus motif; other site 351605004814 putative AMP binding site [chemical binding]; other site 351605004815 putative active site [active] 351605004816 putative CoA binding site [chemical binding]; other site 351605004817 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 351605004818 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 351605004819 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 351605004820 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 351605004821 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 351605004822 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 351605004823 substrate binding site [chemical binding]; other site 351605004824 oxyanion hole (OAH) forming residues; other site 351605004825 trimer interface [polypeptide binding]; other site 351605004826 acetyl-CoA acetyltransferase; Provisional; Region: PRK07661 351605004827 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 351605004828 dimer interface [polypeptide binding]; other site 351605004829 active site 351605004830 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 351605004831 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 351605004832 active site 351605004833 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 351605004834 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 351605004835 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 351605004836 active site 351605004837 FMN binding site [chemical binding]; other site 351605004838 substrate binding site [chemical binding]; other site 351605004839 putative catalytic residue [active] 351605004840 Chalcone-flavanone isomerase; Region: Chalcone; cl03589 351605004841 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 351605004842 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 351605004843 enoyl-CoA hydratase; Provisional; Region: PRK06688 351605004844 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 351605004845 substrate binding site [chemical binding]; other site 351605004846 oxyanion hole (OAH) forming residues; other site 351605004847 trimer interface [polypeptide binding]; other site 351605004848 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 351605004849 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 351605004850 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 351605004851 DNA binding residues [nucleotide binding] 351605004852 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 351605004853 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 351605004854 4Fe-4S binding domain; Region: Fer4; cl02805 351605004855 Cysteine-rich domain; Region: CCG; pfam02754 351605004856 Cysteine-rich domain; Region: CCG; pfam02754 351605004857 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 351605004858 Ligand binding site [chemical binding]; other site 351605004859 Electron transfer flavoprotein domain; Region: ETF; pfam01012 351605004860 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 351605004861 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 351605004862 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 351605004863 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 351605004864 Ligand binding site [chemical binding]; other site 351605004865 Electron transfer flavoprotein domain; Region: ETF; pfam01012 351605004866 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 351605004867 Cysteine-rich domain; Region: CCG; pfam02754 351605004868 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 351605004869 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 351605004870 GTP/Mg2+ binding site [chemical binding]; other site 351605004871 G4 box; other site 351605004872 G5 box; other site 351605004873 G1 box; other site 351605004874 Switch I region; other site 351605004875 G2 box; other site 351605004876 G3 box; other site 351605004877 Switch II region; other site 351605004878 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 351605004879 pseudouridine synthase; Region: TIGR00093 351605004880 active site 351605004881 RIO kinase family; RIO1, RIO3 and similar proteins, catalytic domain. The RIO kinase catalytic domain family is part of a larger superfamily, that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein...; Region: RIO1_like; cd05145 351605004882 ATP binding site [chemical binding]; other site 351605004883 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 351605004884 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 351605004885 hexamer interface [polypeptide binding]; other site 351605004886 ligand binding site [chemical binding]; other site 351605004887 putative active site [active] 351605004888 NAD(P) binding site [chemical binding]; other site 351605004889 acetyl-CoA synthetase; Provisional; Region: PRK04319 351605004890 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 351605004891 Uncharacterized subfamily of Acetyl-CoA synthetase like family (ACS); Region: MACS_like_4; cd05969 351605004892 active site 351605004893 acyl-activating enzyme (AAE) consensus motif; other site 351605004894 putative CoA binding site [chemical binding]; other site 351605004895 AMP binding site [chemical binding]; other site 351605004896 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 351605004897 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 351605004898 tetramer interface [polypeptide binding]; other site 351605004899 TPP-binding site [chemical binding]; other site 351605004900 heterodimer interface [polypeptide binding]; other site 351605004901 phosphorylation loop region [posttranslational modification] 351605004902 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 351605004903 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 351605004904 alpha subunit interface [polypeptide binding]; other site 351605004905 TPP binding site [chemical binding]; other site 351605004906 heterodimer interface [polypeptide binding]; other site 351605004907 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 351605004908 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 351605004909 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 351605004910 E3 interaction surface; other site 351605004911 lipoyl attachment site [posttranslational modification]; other site 351605004912 e3 binding domain; Region: E3_binding; pfam02817 351605004913 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 351605004914 Phosphopantetheine attachment site; Region: PP-binding; cl09936 351605004915 Protein of Unknown function (DUF2784); Region: DUF2784; pfam10861 351605004916 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 351605004917 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 351605004918 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 351605004919 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 351605004920 S-adenosylmethionine binding site [chemical binding]; other site 351605004921 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 351605004922 CAAX protease self-immunity; Region: Abi; pfam02517 351605004923 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 351605004924 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; cl07055 351605004925 DnaA box-binding interface [nucleotide binding]; other site 351605004926 transposase; Validated; Region: PRK08181 351605004927 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 351605004928 Walker A motif; other site 351605004929 ATP binding site [chemical binding]; other site 351605004930 Walker B motif; other site 351605004931 Integrase core domain; Region: rve; pfam00665 351605004932 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 351605004933 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 351605004934 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 351605004935 Sulfatase; Region: Sulfatase; pfam00884 351605004936 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 351605004937 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 351605004938 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 351605004939 Seven times multi-haem cytochrome CxxCH; Region: Multi-haem_cyto; pfam13447 351605004940 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 351605004941 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 351605004942 heme binding site [chemical binding]; other site 351605004943 ferroxidase pore; other site 351605004944 ferroxidase diiron center [ion binding]; other site 351605004945 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 351605004946 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 351605004947 ATP binding site [chemical binding]; other site 351605004948 Mg++ binding site [ion binding]; other site 351605004949 motif III; other site 351605004950 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 351605004951 nucleotide binding region [chemical binding]; other site 351605004952 ATP-binding site [chemical binding]; other site 351605004953 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 351605004954 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 351605004955 S-adenosylmethionine binding site [chemical binding]; other site 351605004956 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 351605004957 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 351605004958 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 351605004959 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 351605004960 putative amphipathic alpha helix; other site 351605004961 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 351605004962 Zn binding site [ion binding]; other site 351605004963 Rhomboid family; Region: Rhomboid; pfam01694 351605004964 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 351605004965 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 351605004966 Major Facilitator Superfamily; Region: MFS_1; pfam07690 351605004967 putative substrate translocation pore; other site 351605004968 Response regulator receiver domain; Region: Response_reg; pfam00072 351605004969 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605004970 active site 351605004971 phosphorylation site [posttranslational modification] 351605004972 intermolecular recognition site; other site 351605004973 dimerization interface [polypeptide binding]; other site 351605004974 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 351605004975 EamA-like transporter family; Region: EamA; cl17759 351605004976 EamA-like transporter family; Region: EamA; cl17759 351605004977 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 351605004978 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 351605004979 Walker A motif; other site 351605004980 ATP binding site [chemical binding]; other site 351605004981 Walker B motif; other site 351605004982 Helix-turn-helix domain; Region: HTH_17; cl17695 351605004983 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 351605004984 substrate binding site [chemical binding]; other site 351605004985 ThiS family; Region: ThiS; pfam02597 351605004986 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 351605004987 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 351605004988 fumarate hydratase; Provisional; Region: PRK15389 351605004989 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 351605004990 Fumarase C-terminus; Region: Fumerase_C; pfam05683 351605004991 Sulfotransferase family; Region: Sulfotransfer_3; pfam13469 351605004992 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 351605004993 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 351605004994 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 351605004995 putative NAD(P) binding site [chemical binding]; other site 351605004996 active site 351605004997 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 351605004998 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 351605004999 COQ9; Region: COQ9; pfam08511 351605005000 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 351605005001 ABC1 family; Region: ABC1; pfam03109 351605005002 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 351605005003 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 351605005004 Walker A/P-loop; other site 351605005005 ATP binding site [chemical binding]; other site 351605005006 Q-loop/lid; other site 351605005007 ABC transporter signature motif; other site 351605005008 Walker B; other site 351605005009 D-loop; other site 351605005010 H-loop/switch region; other site 351605005011 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 351605005012 FtsX-like permease family; Region: FtsX; pfam02687 351605005013 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 351605005014 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 351605005015 FtsX-like permease family; Region: FtsX; pfam02687 351605005016 hypothetical protein; Provisional; Region: PRK08609 351605005017 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 351605005018 active site 351605005019 primer binding site [nucleotide binding]; other site 351605005020 NTP binding site [chemical binding]; other site 351605005021 metal binding triad [ion binding]; metal-binding site 351605005022 Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; Region: PHP_PolX; cd07436 351605005023 active site 351605005024 RNA 3'-terminal-phosphate cyclase; Provisional; Region: PRK04204 351605005025 RNA 3' phosphate cyclase domain (class II). These proteins function as RNA cyclase to catalyze the ATP-dependent conversion of 3'-phosphate to a 2'.3'-cyclic phosphodiester at the end of RNA molecule. A conserved catalytic histidine...; Region: RNA_Cyclase_Class_II; cd00874 351605005026 putative active site [active] 351605005027 adenylation catalytic residue [active] 351605005028 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 351605005029 Cna protein B-type domain; Region: Cna_B_2; pfam13715 351605005030 DDE superfamily endonuclease; Region: DDE_5; pfam13546 351605005031 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 351605005032 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 351605005033 SLBB domain; Region: SLBB; pfam10531 351605005034 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional; Region: PRK09841 351605005035 Chain length determinant protein; Region: Wzz; pfam02706 351605005036 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 351605005037 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 351605005038 Nucleotide binding site [chemical binding]; other site 351605005039 P loop; other site 351605005040 DTAP/Switch II; other site 351605005041 Switch I; other site 351605005042 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 351605005043 UDP-N-acetylglucosamine 4,6-dehydratase/5-epimerase; Region: FnlA; TIGR04130 351605005044 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 351605005045 NAD(P) binding site [chemical binding]; other site 351605005046 homodimer interface [polypeptide binding]; other site 351605005047 substrate binding site [chemical binding]; other site 351605005048 active site 351605005049 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 351605005050 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 351605005051 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 351605005052 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 351605005053 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 351605005054 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 351605005055 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 351605005056 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 351605005057 Walker A/P-loop; other site 351605005058 ATP binding site [chemical binding]; other site 351605005059 Q-loop/lid; other site 351605005060 ABC transporter signature motif; other site 351605005061 Walker B; other site 351605005062 D-loop; other site 351605005063 H-loop/switch region; other site 351605005064 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 351605005065 putative carbohydrate binding site [chemical binding]; other site 351605005066 Methyltransferase domain; Region: Methyltransf_31; pfam13847 351605005067 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 351605005068 S-adenosylmethionine binding site [chemical binding]; other site 351605005069 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 351605005070 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 351605005071 NAD(P) binding site [chemical binding]; other site 351605005072 active site 351605005073 Methyltransferase domain; Region: Methyltransf_31; pfam13847 351605005074 Methyltransferase domain; Region: Methyltransf_11; pfam08241 351605005075 Alpha-1,2-fucosyltransferase; Region: Fut1_Fut2_like; cd11301 351605005076 Glycosyl transferase family 11; Region: Glyco_transf_11; pfam01531 351605005077 GDP-Fucose binding site [chemical binding]; other site 351605005078 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 351605005079 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 351605005080 active site 351605005081 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 351605005082 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 351605005083 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 351605005084 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 351605005085 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 351605005086 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 351605005087 NAD binding site [chemical binding]; other site 351605005088 substrate binding site [chemical binding]; other site 351605005089 homodimer interface [polypeptide binding]; other site 351605005090 active site 351605005091 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 351605005092 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 351605005093 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 351605005094 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 351605005095 This family is most closely related to the GT1 family of glycosyltransferases. Bme6 in Brucella melitensis has been shown to be involved in the biosynthesis of a polysaccharide; Region: GT1_Bme6_like; cd03821 351605005096 putative ADP-binding pocket [chemical binding]; other site 351605005097 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 351605005098 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 351605005099 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 351605005100 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_III; cd01996 351605005101 Ligand Binding Site [chemical binding]; other site 351605005102 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13181 351605005103 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 351605005104 putative active site [active] 351605005105 oxyanion strand; other site 351605005106 catalytic triad [active] 351605005107 imidazole glycerol phosphate synthase subunit HisF; Provisional; Region: PRK01033 351605005108 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 351605005109 substrate binding site [chemical binding]; other site 351605005110 glutamase interaction surface [polypeptide binding]; other site 351605005111 capsular polysaccharide assembling protein (CAPF) like, extended (e) SDRs; Region: CAPF_like_SDR_e; cd05261 351605005112 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 351605005113 putative NAD(P) binding site [chemical binding]; other site 351605005114 active site 351605005115 putative substrate binding site [chemical binding]; other site 351605005116 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 351605005117 GxxExxY protein; Region: GxxExxY; TIGR04256 351605005118 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 351605005119 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 351605005120 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 351605005121 active site 351605005122 homodimer interface [polypeptide binding]; other site 351605005123 putative glycosyl transferase; Provisional; Region: PRK10307 351605005124 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 351605005125 Bacterial sugar transferase; Region: Bac_transf; pfam02397 351605005126 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 351605005127 four helix bundle protein; Region: TIGR02436 351605005128 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 351605005129 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 351605005130 putative trimer interface [polypeptide binding]; other site 351605005131 putative CoA binding site [chemical binding]; other site 351605005132 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 351605005133 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 351605005134 inhibitor-cofactor binding pocket; inhibition site 351605005135 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351605005136 catalytic residue [active] 351605005137 CoA-binding domain; Region: CoA_binding_3; pfam13727 351605005138 CoA binding domain; Region: CoA_binding; smart00881 351605005139 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 351605005140 Polysaccharide biosynthesis protein; Region: Polysacc_synt_2; pfam02719 351605005141 NAD(P) binding site [chemical binding]; other site 351605005142 homodimer interface [polypeptide binding]; other site 351605005143 substrate binding site [chemical binding]; other site 351605005144 active site 351605005145 6-phosphofructokinase; Provisional; Region: PRK03202 351605005146 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 351605005147 active site 351605005148 ADP/pyrophosphate binding site [chemical binding]; other site 351605005149 dimerization interface [polypeptide binding]; other site 351605005150 allosteric effector site; other site 351605005151 fructose-1,6-bisphosphate binding site; other site 351605005152 recombination factor protein RarA; Reviewed; Region: PRK13342 351605005153 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 351605005154 Walker A motif; other site 351605005155 ATP binding site [chemical binding]; other site 351605005156 Walker B motif; other site 351605005157 arginine finger; other site 351605005158 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 351605005159 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 351605005160 homodimer interface [polypeptide binding]; other site 351605005161 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 351605005162 active site pocket [active] 351605005163 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 351605005164 ATP-NAD kinase; Region: NAD_kinase; pfam01513 351605005165 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 351605005166 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 351605005167 Walker A/P-loop; other site 351605005168 ATP binding site [chemical binding]; other site 351605005169 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 351605005170 ABC transporter signature motif; other site 351605005171 Walker B; other site 351605005172 D-loop; other site 351605005173 H-loop/switch region; other site 351605005174 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 351605005175 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 351605005176 Coenzyme A binding pocket [chemical binding]; other site 351605005177 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 351605005178 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 351605005179 dimerization interface [polypeptide binding]; other site 351605005180 putative DNA binding site [nucleotide binding]; other site 351605005181 putative Zn2+ binding site [ion binding]; other site 351605005182 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 351605005183 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 351605005184 Walker A/P-loop; other site 351605005185 ATP binding site [chemical binding]; other site 351605005186 Q-loop/lid; other site 351605005187 ABC transporter signature motif; other site 351605005188 Walker B; other site 351605005189 D-loop; other site 351605005190 H-loop/switch region; other site 351605005191 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 351605005192 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 351605005193 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 351605005194 Walker A/P-loop; other site 351605005195 ATP binding site [chemical binding]; other site 351605005196 Q-loop/lid; other site 351605005197 ABC transporter signature motif; other site 351605005198 Walker B; other site 351605005199 D-loop; other site 351605005200 H-loop/switch region; other site 351605005201 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 351605005202 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 351605005203 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 351605005204 dimerization interface [polypeptide binding]; other site 351605005205 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 351605005206 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 351605005207 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 351605005208 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 351605005209 Zn2+ binding site [ion binding]; other site 351605005210 Mg2+ binding site [ion binding]; other site 351605005211 Stage II sporulation protein; Region: SpoIID; pfam08486 351605005212 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 351605005213 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 351605005214 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 351605005215 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 351605005216 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 351605005217 Preprotein translocase subunit; Region: YajC; pfam02699 351605005218 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 351605005219 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 351605005220 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 351605005221 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 351605005222 Protein export membrane protein; Region: SecD_SecF; pfam02355 351605005223 TPR repeat; Region: TPR_11; pfam13414 351605005224 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 351605005225 binding surface 351605005226 TPR motif; other site 351605005227 TPR repeat; Region: TPR_11; pfam13414 351605005228 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 351605005229 DHH family; Region: DHH; pfam01368 351605005230 DHHA1 domain; Region: DHHA1; pfam02272 351605005231 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 351605005232 generic binding surface I; other site 351605005233 generic binding surface II; other site 351605005234 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 351605005235 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 351605005236 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 351605005237 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 351605005238 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 351605005239 active site 351605005240 NTP binding site [chemical binding]; other site 351605005241 metal binding triad [ion binding]; metal-binding site 351605005242 antibiotic binding site [chemical binding]; other site 351605005243 HEPN domain; Region: HEPN; pfam05168 351605005244 heat shock protein 90; Provisional; Region: PRK05218 351605005245 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 351605005246 ATP binding site [chemical binding]; other site 351605005247 Mg2+ binding site [ion binding]; other site 351605005248 G-X-G motif; other site 351605005249 Cache domain; Region: Cache_1; pfam02743 351605005250 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 351605005251 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 351605005252 putative active site [active] 351605005253 heme pocket [chemical binding]; other site 351605005254 PAS domain; Region: PAS_9; pfam13426 351605005255 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 351605005256 Histidine kinase; Region: HisKA_2; pfam07568 351605005257 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 351605005258 ATP binding site [chemical binding]; other site 351605005259 Mg2+ binding site [ion binding]; other site 351605005260 G-X-G motif; other site 351605005261 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 351605005262 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605005263 active site 351605005264 phosphorylation site [posttranslational modification] 351605005265 intermolecular recognition site; other site 351605005266 dimerization interface [polypeptide binding]; other site 351605005267 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 351605005268 GAF domain; Region: GAF; pfam01590 351605005269 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 351605005270 dimer interface [polypeptide binding]; other site 351605005271 phosphorylation site [posttranslational modification] 351605005272 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 351605005273 ATP binding site [chemical binding]; other site 351605005274 Mg2+ binding site [ion binding]; other site 351605005275 G-X-G motif; other site 351605005276 anthranilate synthase component I; Provisional; Region: PRK13565 351605005277 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 351605005278 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 351605005279 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 351605005280 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 351605005281 glutamine binding [chemical binding]; other site 351605005282 catalytic triad [active] 351605005283 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 351605005284 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 351605005285 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 351605005286 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 351605005287 active site 351605005288 ribulose/triose binding site [chemical binding]; other site 351605005289 phosphate binding site [ion binding]; other site 351605005290 substrate (anthranilate) binding pocket [chemical binding]; other site 351605005291 product (indole) binding pocket [chemical binding]; other site 351605005292 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 351605005293 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 351605005294 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351605005295 catalytic residue [active] 351605005296 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 351605005297 active site 351605005298 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 351605005299 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 351605005300 ligand binding site [chemical binding]; other site 351605005301 NAD binding site [chemical binding]; other site 351605005302 dimerization interface [polypeptide binding]; other site 351605005303 catalytic site [active] 351605005304 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 351605005305 putative L-serine binding site [chemical binding]; other site 351605005306 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 351605005307 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 351605005308 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 351605005309 Isochorismatase family; Region: Isochorismatase; pfam00857 351605005310 catalytic triad [active] 351605005311 metal binding site [ion binding]; metal-binding site 351605005312 conserved cis-peptide bond; other site 351605005313 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 351605005314 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_5; cd11352 351605005315 active site 351605005316 catalytic site [active] 351605005317 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 351605005318 active site 351605005319 catalytic triad [active] 351605005320 oxyanion hole [active] 351605005321 switch loop; other site 351605005322 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 351605005323 KilA-N domain; Region: KilA-N; pfam04383 351605005324 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 351605005325 active site 351605005326 NTP binding site [chemical binding]; other site 351605005327 metal binding triad [ion binding]; metal-binding site 351605005328 antibiotic binding site [chemical binding]; other site 351605005329 methionine sulfoxide reductase A; Provisional; Region: PRK14054 351605005330 PIN domain of the Rv0301 toxin of Mycobacterium tuberculosis and other uncharacterized, annotated PilT protein domain proteins; Region: PIN_MtRv0301; cd09882 351605005331 putative active site [active] 351605005332 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 351605005333 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 351605005334 dimerization interface [polypeptide binding]; other site 351605005335 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 351605005336 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 351605005337 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 351605005338 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 351605005339 Zn2+ binding site [ion binding]; other site 351605005340 Mg2+ binding site [ion binding]; other site 351605005341 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 351605005342 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 351605005343 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 351605005344 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 351605005345 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 351605005346 active site 351605005347 TPR repeat; Region: TPR_11; pfam13414 351605005348 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 351605005349 TPR repeat; Region: TPR_11; pfam13414 351605005350 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 351605005351 binding surface 351605005352 TPR motif; other site 351605005353 Tetratricopeptide repeat; Region: TPR_16; pfam13432 351605005354 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 351605005355 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 351605005356 putative NAD(P) binding site [chemical binding]; other site 351605005357 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 351605005358 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351605005359 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351605005360 metal binding site [ion binding]; metal-binding site 351605005361 active site 351605005362 I-site; other site 351605005363 Serine hydrolase; Region: Ser_hydrolase; cl17834 351605005364 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 351605005365 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 351605005366 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 351605005367 GeoRSP system PqqD family protein; Region: geo_PqqD_fam; TIGR04302 351605005368 GeoRSP system radical SAM/SPASM protein; Region: GeoRSP_rSAM; TIGR04303 351605005369 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 351605005370 FeS/SAM binding site; other site 351605005371 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 351605005372 GeoRSP system SPASM domain protein; Region: GeoRSP_SPASM; TIGR04304 351605005373 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 351605005374 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 351605005375 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 351605005376 ATP binding site [chemical binding]; other site 351605005377 Mg2+ binding site [ion binding]; other site 351605005378 G-X-G motif; other site 351605005379 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 351605005380 ATP binding site [chemical binding]; other site 351605005381 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 351605005382 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 351605005383 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 351605005384 bacterial Hfq-like; Region: Hfq; cd01716 351605005385 hexamer interface [polypeptide binding]; other site 351605005386 Sm1 motif; other site 351605005387 RNA binding site [nucleotide binding]; other site 351605005388 Sm2 motif; other site 351605005389 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 351605005390 Domain of unknown function DUF20; Region: UPF0118; pfam01594 351605005391 putative FeS-containing Cyanobacterial-specific oxidoreductase; Region: cyano_FeS_chp; TIGR03279 351605005392 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 351605005393 Protein of unknown function (DUF512); Region: DUF512; pfam04459 351605005394 Protein of unknown function, DUF399; Region: DUF399; pfam04187 351605005395 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 351605005396 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 351605005397 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 351605005398 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 351605005399 enolase; Provisional; Region: eno; PRK00077 351605005400 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 351605005401 dimer interface [polypeptide binding]; other site 351605005402 metal binding site [ion binding]; metal-binding site 351605005403 substrate binding pocket [chemical binding]; other site 351605005404 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 351605005405 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 351605005406 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 351605005407 Zn2+ binding site [ion binding]; other site 351605005408 Mg2+ binding site [ion binding]; other site 351605005409 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 351605005410 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 351605005411 PAP2_like proteins, diacylglycerol_kinase like sub-family. In some prokaryotes, PAP2_like phosphatase domains appear fused to E. coli DAGK-like trans-membrane diacylglycerol kinase domains. The cellular function of these architectures remains to be...; Region: PAP2_diacylglycerolkinase; cd03383 351605005412 active site 351605005413 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 351605005414 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 351605005415 Transporter associated domain; Region: CorC_HlyC; smart01091 351605005416 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 351605005417 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 351605005418 putative active site [active] 351605005419 catalytic triad [active] 351605005420 putative dimer interface [polypeptide binding]; other site 351605005421 peptide chain release factor 2; Provisional; Region: PRK07342 351605005422 This domain is found in peptide chain release factors; Region: PCRF; smart00937 351605005423 RF-1 domain; Region: RF-1; pfam00472 351605005424 Sporulation related domain; Region: SPOR; pfam05036 351605005425 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 351605005426 NlpC/P60 family; Region: NLPC_P60; pfam00877 351605005427 Homeodomain-like domain; Region: HTH_23; pfam13384 351605005428 Winged helix-turn helix; Region: HTH_29; pfam13551 351605005429 Integrase core domain; Region: rve; pfam00665 351605005430 Integrase core domain; Region: rve_3; cl15866 351605005431 Uncharacterized conserved protein [Function unknown]; Region: COG4198 351605005432 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 351605005433 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 351605005434 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 351605005435 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 351605005436 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 351605005437 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 351605005438 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 351605005439 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 351605005440 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 351605005441 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 351605005442 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 351605005443 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 351605005444 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 351605005445 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 351605005446 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 351605005447 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 351605005448 Zn2+ binding site [ion binding]; other site 351605005449 Mg2+ binding site [ion binding]; other site 351605005450 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 351605005451 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 351605005452 ATP binding site [chemical binding]; other site 351605005453 putative Mg++ binding site [ion binding]; other site 351605005454 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 351605005455 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; cl17351 351605005456 nucleotide binding region [chemical binding]; other site 351605005457 SEC-C motif; Region: SEC-C; pfam02810 351605005458 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 351605005459 heterotetramer interface [polypeptide binding]; other site 351605005460 active site pocket [active] 351605005461 cleavage site 351605005462 Protein of unknown function (DUF2914); Region: DUF2914; pfam11141 351605005463 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 351605005464 Beta-lactamase; Region: Beta-lactamase; pfam00144 351605005465 Response regulator receiver domain; Region: Response_reg; pfam00072 351605005466 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605005467 active site 351605005468 phosphorylation site [posttranslational modification] 351605005469 intermolecular recognition site; other site 351605005470 dimerization interface [polypeptide binding]; other site 351605005471 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 351605005472 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 351605005473 HIGH motif; other site 351605005474 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 351605005475 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 351605005476 active site 351605005477 KMSKS motif; other site 351605005478 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 351605005479 tRNA binding surface [nucleotide binding]; other site 351605005480 anticodon binding site; other site 351605005481 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 351605005482 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 351605005483 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 351605005484 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 351605005485 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 351605005486 dimerization interface [polypeptide binding]; other site 351605005487 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 351605005488 dimer interface [polypeptide binding]; other site 351605005489 phosphorylation site [posttranslational modification] 351605005490 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 351605005491 ATP binding site [chemical binding]; other site 351605005492 Mg2+ binding site [ion binding]; other site 351605005493 G-X-G motif; other site 351605005494 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 351605005495 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605005496 active site 351605005497 phosphorylation site [posttranslational modification] 351605005498 intermolecular recognition site; other site 351605005499 dimerization interface [polypeptide binding]; other site 351605005500 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 351605005501 Walker A motif; other site 351605005502 ATP binding site [chemical binding]; other site 351605005503 Walker B motif; other site 351605005504 arginine finger; other site 351605005505 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 351605005506 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 351605005507 dimerization domain [polypeptide binding]; other site 351605005508 dimer interface [polypeptide binding]; other site 351605005509 catalytic residues [active] 351605005510 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 351605005511 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 351605005512 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 351605005513 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 351605005514 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 351605005515 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 351605005516 non-specific DNA binding site [nucleotide binding]; other site 351605005517 salt bridge; other site 351605005518 sequence-specific DNA binding site [nucleotide binding]; other site 351605005519 Cell division protein FtsA; Region: FtsA; cl17206 351605005520 Competence protein A; Region: Competence_A; pfam11104 351605005521 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 351605005522 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 351605005523 Pilus assembly protein, PilO; Region: PilO; pfam04350 351605005524 Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilP; COG3168 351605005525 Pilus assembly protein, PilP; Region: PilP; pfam04351 351605005526 AMIN domain; Region: AMIN; pfam11741 351605005527 AMIN domain; Region: AMIN; pfam11741 351605005528 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 351605005529 Secretin and TonB N terminus short domain; Region: STN; smart00965 351605005530 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 351605005531 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 351605005532 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 351605005533 Putative Ig domain; Region: He_PIG; pfam05345 351605005534 Disulfide bond isomerase protein N-terminus; Region: DsbC_N; pfam10411 351605005535 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 351605005536 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 351605005537 Tetramer interface [polypeptide binding]; other site 351605005538 active site 351605005539 FMN-binding site [chemical binding]; other site 351605005540 shikimate kinase; Reviewed; Region: aroK; PRK00131 351605005541 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 351605005542 ADP binding site [chemical binding]; other site 351605005543 magnesium binding site [ion binding]; other site 351605005544 putative shikimate binding site; other site 351605005545 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 351605005546 active site 351605005547 dimer interface [polypeptide binding]; other site 351605005548 metal binding site [ion binding]; metal-binding site 351605005549 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 351605005550 TPR motif; other site 351605005551 binding surface 351605005552 Tetratricopeptide repeat; Region: TPR_16; pfam13432 351605005553 Roadblock/LC7 domain; Region: Robl_LC7; cl00886 351605005554 Dehydroquinase class II; Region: DHquinase_II; pfam01220 351605005555 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 351605005556 trimer interface [polypeptide binding]; other site 351605005557 active site 351605005558 dimer interface [polypeptide binding]; other site 351605005559 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 351605005560 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 351605005561 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 351605005562 active site 351605005563 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 351605005564 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 351605005565 carboxyltransferase (CT) interaction site; other site 351605005566 biotinylation site [posttranslational modification]; other site 351605005567 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 351605005568 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 351605005569 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 351605005570 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 351605005571 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 351605005572 lipoyl attachment site [posttranslational modification]; other site 351605005573 Menaquinone biosynthesis; Region: VitK2_biosynth; pfam02621 351605005574 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 351605005575 nudix motif; other site 351605005576 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 351605005577 This PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily and is found in both archaea and bacteria. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible...; Region: PGM_like2; cd05800 351605005578 active site 351605005579 substrate binding site [chemical binding]; other site 351605005580 metal binding site [ion binding]; metal-binding site 351605005581 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 351605005582 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 351605005583 trimerization site [polypeptide binding]; other site 351605005584 active site 351605005585 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 351605005586 NifU-like domain; Region: NifU; cl00484 351605005587 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 351605005588 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 351605005589 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 351605005590 catalytic residue [active] 351605005591 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 351605005592 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 351605005593 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605005594 active site 351605005595 phosphorylation site [posttranslational modification] 351605005596 intermolecular recognition site; other site 351605005597 dimerization interface [polypeptide binding]; other site 351605005598 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 351605005599 Walker A motif; other site 351605005600 ATP binding site [chemical binding]; other site 351605005601 Walker B motif; other site 351605005602 arginine finger; other site 351605005603 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 351605005604 Cache domain; Region: Cache_1; pfam02743 351605005605 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 351605005606 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 351605005607 dimerization interface [polypeptide binding]; other site 351605005608 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 351605005609 dimer interface [polypeptide binding]; other site 351605005610 phosphorylation site [posttranslational modification] 351605005611 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 351605005612 ATP binding site [chemical binding]; other site 351605005613 Mg2+ binding site [ion binding]; other site 351605005614 G-X-G motif; other site 351605005615 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; pfam01977 351605005616 SEFIR domain; Region: SEFIR; pfam08357 351605005617 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351605005618 AAA domain; Region: AAA_21; pfam13304 351605005619 Walker A/P-loop; other site 351605005620 ATP binding site [chemical binding]; other site 351605005621 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 351605005622 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 351605005623 putative active site [active] 351605005624 putative metal-binding site [ion binding]; other site 351605005625 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 351605005626 Part of AAA domain; Region: AAA_19; pfam13245 351605005627 Family description; Region: UvrD_C_2; pfam13538 351605005628 putative transposase OrfB; Reviewed; Region: PHA02517 351605005629 Integrase core domain; Region: rve; pfam00665 351605005630 Integrase core domain; Region: rve_3; pfam13683 351605005631 seryl-tRNA synthetase; Region: serS; TIGR00414 351605005632 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 351605005633 Type II cohesin domain, interaction partner of dockerin; Region: Type_II_cohesin; cd08547 351605005634 dockerin binding interface; other site 351605005635 Predicted transcriptional regulator [Transcription]; Region: COG4190 351605005636 Helix-turn-helix domain; Region: HTH_20; pfam12840 351605005637 putative DNA binding site [nucleotide binding]; other site 351605005638 putative Zn2+ binding site [ion binding]; other site 351605005639 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 351605005640 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 351605005641 active site 351605005642 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 351605005643 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 351605005644 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 351605005645 dihydroorotase; Validated; Region: pyrC; PRK09357 351605005646 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 351605005647 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 351605005648 active site 351605005649 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 351605005650 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 351605005651 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 351605005652 catalytic site [active] 351605005653 subunit interface [polypeptide binding]; other site 351605005654 Radical SAM superfamily; Region: Radical_SAM; pfam04055 351605005655 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 351605005656 FeS/SAM binding site; other site 351605005657 Protein of unknown function, DUF486; Region: DUF486; cl01236 351605005658 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 351605005659 active site 351605005660 NTP binding site [chemical binding]; other site 351605005661 metal binding triad [ion binding]; metal-binding site 351605005662 antibiotic binding site [chemical binding]; other site 351605005663 Protein of unknown function DUF86; Region: DUF86; pfam01934 351605005664 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 351605005665 binding surface 351605005666 TPR motif; other site 351605005667 SEC-C motif; Region: SEC-C; pfam02810 351605005668 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 351605005669 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 351605005670 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 351605005671 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 351605005672 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 351605005673 ATP-grasp domain; Region: ATP-grasp_4; cl17255 351605005674 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 351605005675 IMP binding site; other site 351605005676 dimer interface [polypeptide binding]; other site 351605005677 interdomain contacts; other site 351605005678 partial ornithine binding site; other site 351605005679 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 351605005680 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 351605005681 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 351605005682 hybrid cluster protein-associated redox disulfide domain; Region: prismane_assoc; TIGR03980 351605005683 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 351605005684 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 351605005685 oligomeric interface; other site 351605005686 putative active site [active] 351605005687 homodimer interface [polypeptide binding]; other site 351605005688 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 351605005689 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 351605005690 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 351605005691 ssDNA binding site; other site 351605005692 generic binding surface II; other site 351605005693 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 351605005694 ATP binding site [chemical binding]; other site 351605005695 putative Mg++ binding site [ion binding]; other site 351605005696 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 351605005697 nucleotide binding region [chemical binding]; other site 351605005698 ATP-binding site [chemical binding]; other site 351605005699 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 351605005700 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 351605005701 tetramer interface [polypeptide binding]; other site 351605005702 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351605005703 catalytic residue [active] 351605005704 Proline dehydrogenase; Region: Pro_dh; cl03282 351605005705 1-pyrroline-5-carboxylate dehydrogenase; Provisional; Region: PRK03137 351605005706 Delta(1)-pyrroline-5-carboxylate dehydrogenase, RocA; Region: ALDH_PutA-P5CDH-RocA; cd07124 351605005707 Glutamate binding site [chemical binding]; other site 351605005708 homodimer interface [polypeptide binding]; other site 351605005709 NAD binding site [chemical binding]; other site 351605005710 catalytic residues [active] 351605005711 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 351605005712 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 351605005713 putative phosphate acyltransferase; Provisional; Region: PRK05331 351605005714 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 351605005715 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 351605005716 dimer interface [polypeptide binding]; other site 351605005717 active site 351605005718 CoA binding pocket [chemical binding]; other site 351605005719 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 351605005720 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 351605005721 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 351605005722 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 351605005723 NAD(P) binding site [chemical binding]; other site 351605005724 homotetramer interface [polypeptide binding]; other site 351605005725 homodimer interface [polypeptide binding]; other site 351605005726 active site 351605005727 acyl carrier protein; Provisional; Region: acpP; PRK00982 351605005728 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 351605005729 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 351605005730 dimer interface [polypeptide binding]; other site 351605005731 active site 351605005732 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 351605005733 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 351605005734 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 351605005735 dimer interface [polypeptide binding]; other site 351605005736 active site 351605005737 glycine-pyridoxal phosphate binding site [chemical binding]; other site 351605005738 folate binding site [chemical binding]; other site 351605005739 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 351605005740 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 351605005741 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 351605005742 Competence protein; Region: Competence; pfam03772 351605005743 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 351605005744 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 351605005745 Response regulator receiver domain; Region: Response_reg; pfam00072 351605005746 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605005747 active site 351605005748 phosphorylation site [posttranslational modification] 351605005749 intermolecular recognition site; other site 351605005750 dimerization interface [polypeptide binding]; other site 351605005751 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351605005752 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351605005753 metal binding site [ion binding]; metal-binding site 351605005754 active site 351605005755 I-site; other site 351605005756 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 351605005757 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 351605005758 dimer interface [polypeptide binding]; other site 351605005759 motif 1; other site 351605005760 active site 351605005761 motif 2; other site 351605005762 motif 3; other site 351605005763 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 351605005764 anticodon binding site; other site 351605005765 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 351605005766 NodB motif; other site 351605005767 putative active site [active] 351605005768 putative catalytic site [active] 351605005769 Zn binding site [ion binding]; other site 351605005770 AAA domain; Region: AAA_31; pfam13614 351605005771 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 351605005772 P-loop; other site 351605005773 Magnesium ion binding site [ion binding]; other site 351605005774 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 351605005775 Magnesium ion binding site [ion binding]; other site 351605005776 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 351605005777 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 351605005778 generic binding surface II; other site 351605005779 generic binding surface I; other site 351605005780 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 351605005781 Phosphoribosyltransferase (PRTase) type II; This family contains two enzymes that play an important role in NAD production by either allowing quinolinic acid (QA) , quinolinate phosphoribosyl transferase (QAPRTase), or nicotinic acid (NA), nicotinate...; Region: PRTase_typeII; cl17275 351605005782 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 351605005783 motif II; other site 351605005784 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 351605005785 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 351605005786 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351605005787 catalytic residue [active] 351605005788 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 351605005789 binding surface 351605005790 TPR motif; other site 351605005791 Tetratricopeptide repeat; Region: TPR_12; pfam13424 351605005792 mce related protein; Region: MCE; pfam02470 351605005793 Cytoadherence-linked asexual protein; Region: CLAG; pfam03805 351605005794 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351605005795 ATP binding site [chemical binding]; other site 351605005796 Walker A/P-loop; other site 351605005797 ABC transporter; Region: ABC_tran; pfam00005 351605005798 Q-loop/lid; other site 351605005799 ABC transporter signature motif; other site 351605005800 Walker B; other site 351605005801 D-loop; other site 351605005802 Permease; Region: Permease; pfam02405 351605005803 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 351605005804 ribosome maturation protein RimP; Reviewed; Region: PRK00092 351605005805 Sm and related proteins; Region: Sm_like; cl00259 351605005806 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 351605005807 putative oligomer interface [polypeptide binding]; other site 351605005808 putative RNA binding site [nucleotide binding]; other site 351605005809 NusA N-terminal domain; Region: NusA_N; pfam08529 351605005810 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 351605005811 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 351605005812 RNA binding site [nucleotide binding]; other site 351605005813 homodimer interface [polypeptide binding]; other site 351605005814 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 351605005815 G-X-X-G motif; other site 351605005816 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 351605005817 G-X-X-G motif; other site 351605005818 Protein of unknown function (DUF448); Region: DUF448; pfam04296 351605005819 putative RNA binding cleft [nucleotide binding]; other site 351605005820 Ribosomal protein HS6-type (S12/L30/L7a) [Translation, ribosomal structure and biogenesis]; Region: RPL8A; COG1358 351605005821 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 351605005822 translation initiation factor IF-2; Validated; Region: infB; PRK05306 351605005823 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 351605005824 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 351605005825 G1 box; other site 351605005826 putative GEF interaction site [polypeptide binding]; other site 351605005827 GTP/Mg2+ binding site [chemical binding]; other site 351605005828 Switch I region; other site 351605005829 G2 box; other site 351605005830 G3 box; other site 351605005831 Switch II region; other site 351605005832 G4 box; other site 351605005833 G5 box; other site 351605005834 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 351605005835 Translation-initiation factor 2; Region: IF-2; pfam11987 351605005836 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 351605005837 ribosome-binding factor A; Provisional; Region: PRK13815 351605005838 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 351605005839 DHH family; Region: DHH; pfam01368 351605005840 DHHA1 domain; Region: DHHA1; pfam02272 351605005841 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01550 351605005842 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 351605005843 RNA binding site [nucleotide binding]; other site 351605005844 active site 351605005845 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 351605005846 16S/18S rRNA binding site [nucleotide binding]; other site 351605005847 S13e-L30e interaction site [polypeptide binding]; other site 351605005848 25S rRNA binding site [nucleotide binding]; other site 351605005849 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 351605005850 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 351605005851 RNase E interface [polypeptide binding]; other site 351605005852 trimer interface [polypeptide binding]; other site 351605005853 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 351605005854 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 351605005855 RNase E interface [polypeptide binding]; other site 351605005856 trimer interface [polypeptide binding]; other site 351605005857 active site 351605005858 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 351605005859 putative nucleic acid binding region [nucleotide binding]; other site 351605005860 G-X-X-G motif; other site 351605005861 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 351605005862 RNA binding site [nucleotide binding]; other site 351605005863 domain interface; other site 351605005864 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 351605005865 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 351605005866 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 351605005867 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 351605005868 trimer interface [polypeptide binding]; other site 351605005869 active site 351605005870 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 351605005871 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 351605005872 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 351605005873 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 351605005874 active site 351605005875 nucleophile elbow; other site 351605005876 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 351605005877 trigger factor; Provisional; Region: tig; PRK01490 351605005878 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 351605005879 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 351605005880 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 351605005881 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 351605005882 oligomer interface [polypeptide binding]; other site 351605005883 active site residues [active] 351605005884 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 351605005885 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 351605005886 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 351605005887 Walker A motif; other site 351605005888 ATP binding site [chemical binding]; other site 351605005889 Walker B motif; other site 351605005890 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 351605005891 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 351605005892 Found in ATP-dependent protease La (LON); Region: LON; smart00464 351605005893 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 351605005894 Walker A motif; other site 351605005895 ATP binding site [chemical binding]; other site 351605005896 Walker B motif; other site 351605005897 arginine finger; other site 351605005898 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 351605005899 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 351605005900 IHF - DNA interface [nucleotide binding]; other site 351605005901 IHF dimer interface [polypeptide binding]; other site 351605005902 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 351605005903 Ligand binding site; other site 351605005904 Putative Catalytic site; other site 351605005905 DXD motif; other site 351605005906 Uncharacterized conserved protein [Function unknown]; Region: COG3391 351605005907 NHL repeat; Region: NHL; pfam01436 351605005908 NHL repeat; Region: NHL; pfam01436 351605005909 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 351605005910 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 351605005911 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 351605005912 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 351605005913 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 351605005914 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 351605005915 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 351605005916 Walker A motif; other site 351605005917 ATP binding site [chemical binding]; other site 351605005918 Walker B motif; other site 351605005919 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 351605005920 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 351605005921 Pilus assembly protein, PilO; Region: PilO; cl01234 351605005922 TPR repeat; Region: TPR_11; pfam13414 351605005923 Tetratricopeptide repeats; Region: TPR; smart00028 351605005924 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 351605005925 Secretin and TonB N terminus short domain; Region: STN; smart00965 351605005926 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 351605005927 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 351605005928 Cohesin domain, interaction parter of dockerin; Region: cohesin_like; cd08546 351605005929 dockerin binding interface; other site 351605005930 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 351605005931 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 351605005932 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 351605005933 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 351605005934 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 351605005935 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 351605005936 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 351605005937 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351605005938 Walker A/P-loop; other site 351605005939 ATP binding site [chemical binding]; other site 351605005940 Q-loop/lid; other site 351605005941 ABC transporter signature motif; other site 351605005942 Walker B; other site 351605005943 D-loop; other site 351605005944 H-loop/switch region; other site 351605005945 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 351605005946 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 351605005947 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 351605005948 Peptidase family M23; Region: Peptidase_M23; pfam01551 351605005949 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 351605005950 C-terminal peptidase (prc); Region: prc; TIGR00225 351605005951 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 351605005952 protein binding site [polypeptide binding]; other site 351605005953 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 351605005954 Catalytic dyad [active] 351605005955 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 351605005956 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; cl17355 351605005957 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 351605005958 Type II cohesin domain, interaction partner of dockerin; Region: Type_II_cohesin; cd08547 351605005959 dockerin binding interface; other site 351605005960 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 351605005961 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 351605005962 substrate binding site [chemical binding]; other site 351605005963 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 351605005964 substrate binding site [chemical binding]; other site 351605005965 ligand binding site [chemical binding]; other site 351605005966 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 351605005967 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 351605005968 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 351605005969 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 351605005970 Zn2+ binding site [ion binding]; other site 351605005971 Mg2+ binding site [ion binding]; other site 351605005972 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 351605005973 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 351605005974 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 351605005975 hydrogenase 2 protein HybA; Provisional; Region: PRK10882 351605005976 putative hydrogenase 2 b cytochrome subunit; Provisional; Region: PRK10881 351605005977 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 351605005978 hydrogenase 2 large subunit; Provisional; Region: PRK10467 351605005979 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 351605005980 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 351605005981 putative substrate-binding site; other site 351605005982 nickel binding site [ion binding]; other site 351605005983 twin arginine translocase protein A; Provisional; Region: tatA; PRK14860 351605005984 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 351605005985 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 351605005986 Acylphosphatase; Region: Acylphosphatase; pfam00708 351605005987 HypF finger; Region: zf-HYPF; pfam07503 351605005988 HypF finger; Region: zf-HYPF; pfam07503 351605005989 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 351605005990 HupF/HypC family; Region: HupF_HypC; pfam01455 351605005991 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 351605005992 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 351605005993 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 351605005994 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 351605005995 dimerization interface [polypeptide binding]; other site 351605005996 ATP binding site [chemical binding]; other site 351605005997 PilZ domain; Region: PilZ; pfam07238 351605005998 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 351605005999 4-aminobutyrate aminotransferase; Provisional; Region: PRK08117 351605006000 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 351605006001 inhibitor-cofactor binding pocket; inhibition site 351605006002 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351605006003 catalytic residue [active] 351605006004 Predicted GTPase [General function prediction only]; Region: COG2403 351605006005 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 351605006006 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605006007 active site 351605006008 phosphorylation site [posttranslational modification] 351605006009 intermolecular recognition site; other site 351605006010 dimerization interface [polypeptide binding]; other site 351605006011 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 351605006012 Walker A motif; other site 351605006013 ATP binding site [chemical binding]; other site 351605006014 Walker B motif; other site 351605006015 arginine finger; other site 351605006016 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 351605006017 HAMP domain; Region: HAMP; pfam00672 351605006018 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 351605006019 ATP binding site [chemical binding]; other site 351605006020 Mg2+ binding site [ion binding]; other site 351605006021 G-X-G motif; other site 351605006022 putative geopeptide radical SAM maturase; Region: geopep_mat_rSAM; TIGR04280 351605006023 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 351605006024 FeS/SAM binding site; other site 351605006025 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 351605006026 putative geopeptide radical SAM maturase; Region: geopep_mat_rSAM; TIGR04280 351605006027 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 351605006028 FeS/SAM binding site; other site 351605006029 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 351605006030 colanic acid exporter; Provisional; Region: PRK10459 351605006031 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 351605006032 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 351605006033 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 351605006034 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 351605006035 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 351605006036 active site 351605006037 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 351605006038 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605006039 active site 351605006040 phosphorylation site [posttranslational modification] 351605006041 intermolecular recognition site; other site 351605006042 dimerization interface [polypeptide binding]; other site 351605006043 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 351605006044 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 351605006045 PemK-like protein; Region: PemK; pfam02452 351605006046 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 351605006047 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 351605006048 Coenzyme A binding pocket [chemical binding]; other site 351605006049 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 351605006050 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 351605006051 ATP binding site [chemical binding]; other site 351605006052 Mg++ binding site [ion binding]; other site 351605006053 motif III; other site 351605006054 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 351605006055 nucleotide binding region [chemical binding]; other site 351605006056 ATP-binding site [chemical binding]; other site 351605006057 Protein of unknown function (DUF4079); Region: DUF4079; pfam13301 351605006058 M28 Zn-Peptidases; Region: M28_like_1; cd05640 351605006059 Peptidase family M28; Region: Peptidase_M28; pfam04389 351605006060 metal binding site [ion binding]; metal-binding site 351605006061 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 351605006062 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 351605006063 putative active site [active] 351605006064 catalytic triad [active] 351605006065 putative dimer interface [polypeptide binding]; other site 351605006066 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 351605006067 BON domain; Region: BON; pfam04972 351605006068 exonuclease subunit SbcD; Provisional; Region: PRK10966 351605006069 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 351605006070 active site 351605006071 metal binding site [ion binding]; metal-binding site 351605006072 DNA binding site [nucleotide binding] 351605006073 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 351605006074 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351605006075 AAA domain; Region: AAA_23; pfam13476 351605006076 Walker A/P-loop; other site 351605006077 ATP binding site [chemical binding]; other site 351605006078 Q-loop/lid; other site 351605006079 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351605006080 ABC transporter signature motif; other site 351605006081 Walker B; other site 351605006082 D-loop; other site 351605006083 H-loop/switch region; other site 351605006084 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 351605006085 S-adenosylmethionine binding site [chemical binding]; other site 351605006086 Methyltransferase domain; Region: Methyltransf_23; pfam13489 351605006087 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 351605006088 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 351605006089 catalytic motif [active] 351605006090 Catalytic residue [active] 351605006091 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 351605006092 Sel1-like repeats; Region: SEL1; smart00671 351605006093 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 351605006094 Sel1-like repeats; Region: SEL1; smart00671 351605006095 Sel1-like repeats; Region: SEL1; smart00671 351605006096 Sel1-like repeats; Region: SEL1; smart00671 351605006097 Sel1-like repeats; Region: SEL1; smart00671 351605006098 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 351605006099 Sel1-like repeats; Region: SEL1; smart00671 351605006100 Sel1-like repeats; Region: SEL1; smart00671 351605006101 Sel1-like repeats; Region: SEL1; smart00671 351605006102 Sel1-like repeats; Region: SEL1; smart00671 351605006103 Sel1-like repeats; Region: SEL1; smart00671 351605006104 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 351605006105 binding surface 351605006106 TPR motif; other site 351605006107 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 351605006108 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605006109 active site 351605006110 phosphorylation site [posttranslational modification] 351605006111 intermolecular recognition site; other site 351605006112 dimerization interface [polypeptide binding]; other site 351605006113 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 351605006114 DNA binding site [nucleotide binding] 351605006115 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 351605006116 HAMP domain; Region: HAMP; pfam00672 351605006117 dimerization interface [polypeptide binding]; other site 351605006118 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 351605006119 dimer interface [polypeptide binding]; other site 351605006120 phosphorylation site [posttranslational modification] 351605006121 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 351605006122 ATP binding site [chemical binding]; other site 351605006123 Mg2+ binding site [ion binding]; other site 351605006124 G-X-G motif; other site 351605006125 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 351605006126 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 351605006127 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 351605006128 Putative bacterial lipoprotein (DUF799); Region: DUF799; cl01813 351605006129 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 351605006130 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 351605006131 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 351605006132 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 351605006133 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 351605006134 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 351605006135 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 351605006136 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 351605006137 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 351605006138 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 351605006139 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 351605006140 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 351605006141 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 351605006142 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 351605006143 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 351605006144 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 351605006145 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 351605006146 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 351605006147 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 351605006148 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 351605006149 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 351605006150 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 351605006151 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 351605006152 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 351605006153 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 351605006154 Sel1-like repeats; Region: SEL1; smart00671 351605006155 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 351605006156 Sel1-like repeats; Region: SEL1; smart00671 351605006157 Sel1-like repeats; Region: SEL1; smart00671 351605006158 Response regulator receiver domain; Region: Response_reg; pfam00072 351605006159 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605006160 active site 351605006161 phosphorylation site [posttranslational modification] 351605006162 intermolecular recognition site; other site 351605006163 dimerization interface [polypeptide binding]; other site 351605006164 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 351605006165 ATP binding site [chemical binding]; other site 351605006166 G-X-G motif; other site 351605006167 Carbonic anhydrase; Region: Pro_CA; smart00947 351605006168 active site clefts [active] 351605006169 zinc binding site [ion binding]; other site 351605006170 dimer interface [polypeptide binding]; other site 351605006171 PemK-like protein; Region: PemK; pfam02452 351605006172 Nuclease-related domain; Region: NERD; pfam08378 351605006173 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 351605006174 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 351605006175 3-beta hydroxysteroid dehydrogenase/isomerase family; Region: 3Beta_HSD; pfam01073 351605006176 NAD(P) binding site [chemical binding]; other site 351605006177 active site 351605006178 peptide synthase; Provisional; Region: PRK09274 351605006179 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_1; cd05910 351605006180 acyl-activating enzyme (AAE) consensus motif; other site 351605006181 putative AMP binding site [chemical binding]; other site 351605006182 putative active site [active] 351605006183 putative CoA binding site [chemical binding]; other site 351605006184 haloalkane dehalogenase; Provisional; Region: PRK03592 351605006185 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09258 351605006186 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 351605006187 active site 351605006188 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 351605006189 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 351605006190 active site 351605006191 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 351605006192 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 351605006193 active site 351605006194 Acyl transferase domain; Region: Acyl_transf_1; cl08282 351605006195 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 351605006196 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 351605006197 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 351605006198 active site 2 [active] 351605006199 active site 1 [active] 351605006200 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 351605006201 active site 1 [active] 351605006202 dimer interface [polypeptide binding]; other site 351605006203 active site 2 [active] 351605006204 FabA/Z, beta-hydroxyacyl-acyl carrier protein (ACP)-dehydratases: One of several distinct enzyme types of the dissociative, type II, fatty acid synthase system (found in bacteria and plants) required to complete successive cycles of fatty acid elongation; Region: FabA_FabZ; cd00493 351605006205 active site 2 [active] 351605006206 dimer interface [polypeptide binding]; other site 351605006207 active site 1 [active] 351605006208 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 351605006209 active site 1 [active] 351605006210 dimer interface [polypeptide binding]; other site 351605006211 active site 2 [active] 351605006212 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 351605006213 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 351605006214 active site 351605006215 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 351605006216 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 351605006217 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 351605006218 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 351605006219 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 351605006220 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 351605006221 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 351605006222 putative NADP binding site [chemical binding]; other site 351605006223 active site 351605006224 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 351605006225 2-Nitropropane dioxygenase (NPD)-like domain, associated with the (acyl-carrier-protein) S-malonyltransferase FabD. NPD is part of the nitroalkaneoxidizing enzyme family, that catalyzes oxidative denitrification of nitroalkanes to their corresponding...; Region: NPD_FabD; cd04742 351605006226 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 351605006227 FMN binding site [chemical binding]; other site 351605006228 substrate binding site [chemical binding]; other site 351605006229 putative catalytic residue [active] 351605006230 PAS domain S-box; Region: sensory_box; TIGR00229 351605006231 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 351605006232 putative active site [active] 351605006233 heme pocket [chemical binding]; other site 351605006234 PAS domain S-box; Region: sensory_box; TIGR00229 351605006235 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 351605006236 putative active site [active] 351605006237 heme pocket [chemical binding]; other site 351605006238 PAS domain S-box; Region: sensory_box; TIGR00229 351605006239 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 351605006240 putative active site [active] 351605006241 heme pocket [chemical binding]; other site 351605006242 PAS domain S-box; Region: sensory_box; TIGR00229 351605006243 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 351605006244 putative active site [active] 351605006245 heme pocket [chemical binding]; other site 351605006246 PAS fold; Region: PAS_4; pfam08448 351605006247 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 351605006248 putative active site [active] 351605006249 heme pocket [chemical binding]; other site 351605006250 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 351605006251 dimer interface [polypeptide binding]; other site 351605006252 phosphorylation site [posttranslational modification] 351605006253 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 351605006254 ATP binding site [chemical binding]; other site 351605006255 Mg2+ binding site [ion binding]; other site 351605006256 G-X-G motif; other site 351605006257 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 351605006258 dimer interface [polypeptide binding]; other site 351605006259 phosphorylation site [posttranslational modification] 351605006260 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 351605006261 ATP binding site [chemical binding]; other site 351605006262 Mg2+ binding site [ion binding]; other site 351605006263 G-X-G motif; other site 351605006264 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 351605006265 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605006266 active site 351605006267 phosphorylation site [posttranslational modification] 351605006268 intermolecular recognition site; other site 351605006269 dimerization interface [polypeptide binding]; other site 351605006270 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 351605006271 Walker A motif; other site 351605006272 ATP binding site [chemical binding]; other site 351605006273 Walker B motif; other site 351605006274 arginine finger; other site 351605006275 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 351605006276 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 351605006277 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 351605006278 Interdomain contacts; other site 351605006279 Cytokine receptor motif; other site 351605006280 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 351605006281 Interdomain contacts; other site 351605006282 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 351605006283 Interdomain contacts; other site 351605006284 Cytokine receptor motif; other site 351605006285 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 351605006286 PAS domain S-box; Region: sensory_box; TIGR00229 351605006287 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 351605006288 putative active site [active] 351605006289 heme pocket [chemical binding]; other site 351605006290 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 351605006291 GAF domain; Region: GAF; pfam01590 351605006292 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 351605006293 dimer interface [polypeptide binding]; other site 351605006294 phosphorylation site [posttranslational modification] 351605006295 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 351605006296 ATP binding site [chemical binding]; other site 351605006297 Mg2+ binding site [ion binding]; other site 351605006298 G-X-G motif; other site 351605006299 Response regulator receiver domain; Region: Response_reg; pfam00072 351605006300 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605006301 active site 351605006302 phosphorylation site [posttranslational modification] 351605006303 intermolecular recognition site; other site 351605006304 dimerization interface [polypeptide binding]; other site 351605006305 ParB-like nuclease domain; Region: ParB; smart00470 351605006306 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 351605006307 homodimer interface [polypeptide binding]; other site 351605006308 Walker A motif; other site 351605006309 ATP binding site [chemical binding]; other site 351605006310 hydroxycobalamin binding site [chemical binding]; other site 351605006311 Walker B motif; other site 351605006312 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 351605006313 B12 binding site [chemical binding]; other site 351605006314 cobalt ligand [ion binding]; other site 351605006315 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 351605006316 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 351605006317 Walker A; other site 351605006318 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 351605006319 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 351605006320 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 351605006321 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 351605006322 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 351605006323 Uncharacterized conserved protein [Function unknown]; Region: COG4095 351605006324 LemA family; Region: LemA; pfam04011 351605006325 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 351605006326 Repair protein; Region: Repair_PSII; pfam04536 351605006327 Repair protein; Region: Repair_PSII; cl01535 351605006328 Geobacter CxxxxCH...CXXCH motif (GSu_C4xC__C2xCH); Region: GSu_C4xC__C2xCH; pfam09698 351605006329 Geobacter CxxxxCH...CXXCH motif (GSu_C4xC__C2xCH); Region: GSu_C4xC__C2xCH; pfam09698 351605006330 PQQ-like domain; Region: PQQ_2; pfam13360 351605006331 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 351605006332 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 351605006333 Interdomain contacts; other site 351605006334 Cytokine receptor motif; other site 351605006335 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 351605006336 Interdomain contacts; other site 351605006337 Cytokine receptor motif; other site 351605006338 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 351605006339 Interdomain contacts; other site 351605006340 Cytokine receptor motif; other site 351605006341 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 351605006342 Interdomain contacts; other site 351605006343 Cytokine receptor motif; other site 351605006344 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 351605006345 Interdomain contacts; other site 351605006346 Cytokine receptor motif; other site 351605006347 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 351605006348 Interdomain contacts; other site 351605006349 Cytokine receptor motif; other site 351605006350 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 351605006351 Interdomain contacts; other site 351605006352 Cytokine receptor motif; other site 351605006353 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 351605006354 Interdomain contacts; other site 351605006355 Cytokine receptor motif; other site 351605006356 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 351605006357 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 351605006358 RNA binding surface [nucleotide binding]; other site 351605006359 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 351605006360 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 351605006361 nucleotide binding site/active site [active] 351605006362 HIT family signature motif; other site 351605006363 catalytic residue [active] 351605006364 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 351605006365 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 351605006366 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 351605006367 PRC-barrel domain; Region: PRC; pfam05239 351605006368 MgtE intracellular N domain; Region: MgtE_N; smart00924 351605006369 FOG: CBS domain [General function prediction only]; Region: COG0517 351605006370 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 351605006371 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 351605006372 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 351605006373 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 351605006374 ATP binding site [chemical binding]; other site 351605006375 Mg2+ binding site [ion binding]; other site 351605006376 G-X-G motif; other site 351605006377 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 351605006378 anti sigma factor interaction site; other site 351605006379 regulatory phosphorylation site [posttranslational modification]; other site 351605006380 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 351605006381 GAF domain; Region: GAF_2; pfam13185 351605006382 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 351605006383 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 351605006384 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 351605006385 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 351605006386 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 351605006387 substrate binding site [chemical binding]; other site 351605006388 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 351605006389 AAA domain; Region: AAA_33; pfam13671 351605006390 active site 351605006391 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 351605006392 binding surface 351605006393 TPR motif; other site 351605006394 TPR repeat; Region: TPR_11; pfam13414 351605006395 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 351605006396 binding surface 351605006397 TPR repeat; Region: TPR_11; pfam13414 351605006398 TPR motif; other site 351605006399 TPR repeat; Region: TPR_11; pfam13414 351605006400 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 351605006401 binding surface 351605006402 TPR motif; other site 351605006403 TPR repeat; Region: TPR_11; pfam13414 351605006404 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 351605006405 binding surface 351605006406 TPR motif; other site 351605006407 Tetratricopeptide repeat; Region: TPR_12; pfam13424 351605006408 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 351605006409 binding surface 351605006410 TPR motif; other site 351605006411 TPR repeat; Region: TPR_11; pfam13414 351605006412 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 351605006413 binding surface 351605006414 TPR motif; other site 351605006415 TPR repeat; Region: TPR_11; pfam13414 351605006416 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 351605006417 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 351605006418 peptide binding site [polypeptide binding]; other site 351605006419 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 351605006420 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 351605006421 dimer interface [polypeptide binding]; other site 351605006422 conserved gate region; other site 351605006423 putative PBP binding loops; other site 351605006424 ABC-ATPase subunit interface; other site 351605006425 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 351605006426 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 351605006427 putative active site [active] 351605006428 putative NTP binding site [chemical binding]; other site 351605006429 putative nucleic acid binding site [nucleotide binding]; other site 351605006430 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 351605006431 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 351605006432 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 351605006433 dimer interface [polypeptide binding]; other site 351605006434 conserved gate region; other site 351605006435 putative PBP binding loops; other site 351605006436 ABC-ATPase subunit interface; other site 351605006437 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 351605006438 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 351605006439 Walker A motif; other site 351605006440 ATP binding site [chemical binding]; other site 351605006441 Walker B motif; other site 351605006442 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 351605006443 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 351605006444 active site 351605006445 Zn binding site [ion binding]; other site 351605006446 Domain of unknown function (DUF4410); Region: DUF4410; pfam14366 351605006447 Outer membrane lipoprotein Slp family; Region: Slp; pfam03843 351605006448 Preprotein translocase SecG subunit; Region: SecG; pfam03840 351605006449 triosephosphate isomerase; Provisional; Region: PRK14567 351605006450 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 351605006451 substrate binding site [chemical binding]; other site 351605006452 dimer interface [polypeptide binding]; other site 351605006453 catalytic triad [active] 351605006454 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 351605006455 Phosphoglycerate kinase; Region: PGK; pfam00162 351605006456 substrate binding site [chemical binding]; other site 351605006457 hinge regions; other site 351605006458 ADP binding site [chemical binding]; other site 351605006459 catalytic site [active] 351605006460 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 351605006461 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 351605006462 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 351605006463 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 351605006464 putative active site [active] 351605006465 heme pocket [chemical binding]; other site 351605006466 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 351605006467 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 351605006468 dimer interface [polypeptide binding]; other site 351605006469 phosphorylation site [posttranslational modification] 351605006470 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 351605006471 ATP binding site [chemical binding]; other site 351605006472 Mg2+ binding site [ion binding]; other site 351605006473 G-X-G motif; other site 351605006474 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 351605006475 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 351605006476 adenylosuccinate lyase; Provisional; Region: PRK07492 351605006477 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 351605006478 tetramer interface [polypeptide binding]; other site 351605006479 active site 351605006480 Mechanosensitive ion channel; Region: MS_channel; pfam00924 351605006481 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 351605006482 Phosphoribosylformylglycinamidine (FGAM) synthase, synthetase domain [Nucleotide transport and metabolism]; Region: PurL; COG0046 351605006483 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 351605006484 dimerization interface [polypeptide binding]; other site 351605006485 ATP binding site [chemical binding]; other site 351605006486 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 351605006487 dimerization interface [polypeptide binding]; other site 351605006488 ATP binding site [chemical binding]; other site 351605006489 CobB/CobQ-like glutamine amidotransferase domain; Region: GATase_5; pfam13507 351605006490 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 351605006491 putative active site [active] 351605006492 catalytic triad [active] 351605006493 amidophosphoribosyltransferase; Provisional; Region: PRK09123 351605006494 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 351605006495 active site 351605006496 tetramer interface [polypeptide binding]; other site 351605006497 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 351605006498 active site 351605006499 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 351605006500 active site 351605006501 Flagellin N-methylase; Region: FliB; cl00497 351605006502 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 351605006503 binding surface 351605006504 TPR motif; other site 351605006505 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 351605006506 TPR motif; other site 351605006507 binding surface 351605006508 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 351605006509 binding surface 351605006510 TPR motif; other site 351605006511 TonB C terminal; Region: TonB_2; pfam13103 351605006512 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 351605006513 Malic enzyme, N-terminal domain; Region: malic; pfam00390 351605006514 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 351605006515 putative NAD(P) binding site [chemical binding]; other site 351605006516 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 351605006517 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 351605006518 nucleotide binding site/active site [active] 351605006519 HIT family signature motif; other site 351605006520 catalytic residue [active] 351605006521 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 351605006522 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 351605006523 nucleotide binding site [chemical binding]; other site 351605006524 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 351605006525 phosphofructokinase; Region: PFK_mixed; TIGR02483 351605006526 active site 351605006527 ADP/pyrophosphate binding site [chemical binding]; other site 351605006528 dimerization interface [polypeptide binding]; other site 351605006529 allosteric effector site; other site 351605006530 fructose-1,6-bisphosphate binding site; other site 351605006531 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 351605006532 GAF domain; Region: GAF; pfam01590 351605006533 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 351605006534 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 351605006535 dimer interface [polypeptide binding]; other site 351605006536 putative CheW interface [polypeptide binding]; other site 351605006537 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 351605006538 oligomerization interface [polypeptide binding]; other site 351605006539 active site 351605006540 metal binding site [ion binding]; metal-binding site 351605006541 pantoate--beta-alanine ligase; Region: panC; TIGR00018 351605006542 Pantoate-beta-alanine ligase; Region: PanC; cd00560 351605006543 active site 351605006544 ATP-binding site [chemical binding]; other site 351605006545 pantoate-binding site; other site 351605006546 HXXH motif; other site 351605006547 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 351605006548 tetramerization interface [polypeptide binding]; other site 351605006549 active site 351605006550 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 351605006551 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 351605006552 active site 351605006553 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 351605006554 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 351605006555 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 351605006556 SmpB-tmRNA interface; other site 351605006557 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; cl17552 351605006558 Nucleotidyltransferase (NT) domain of poly(A) polymerases and terminal uridylyl transferases; Region: NT_PAP_TUTase; cd05402 351605006559 active site 351605006560 metal binding triad [ion binding]; metal-binding site 351605006561 Uncharacterized protein family (UPF0270); Region: UPF0270; cl01180 351605006562 Phage protein Gp37/Gp68; Region: Gp37_Gp68; pfam07505 351605006563 Uncharacterized protein family (UPF0270); Region: UPF0270; cl01180 351605006564 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 351605006565 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 351605006566 non-specific DNA binding site [nucleotide binding]; other site 351605006567 salt bridge; other site 351605006568 sequence-specific DNA binding site [nucleotide binding]; other site 351605006569 HipA-like N-terminal domain; Region: HipA_N; pfam07805 351605006570 HipA-like C-terminal domain; Region: HipA_C; pfam07804 351605006571 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 351605006572 HsdM N-terminal domain; Region: HsdM_N; pfam12161 351605006573 Methyltransferase domain; Region: Methyltransf_26; pfam13659 351605006574 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 351605006575 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 351605006576 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 351605006577 Antitoxin of toxin-antitoxin stability system N-terminal; Region: RelB_N; pfam12910 351605006578 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 351605006579 four helix bundle suffix domain; Region: 4helix_suffix; TIGR04258 351605006580 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 351605006581 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 351605006582 NAD(P)H:flavin oxidoreductase-like family 2. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_2; cd02151 351605006583 putative FMN binding site [chemical binding]; other site 351605006584 Uncharacterized conserved protein [Function unknown]; Region: COG0432 351605006585 Glycine-zipper containing OmpA-like membrane domain; Region: Gly-zipper_OmpA; pfam13436 351605006586 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 351605006587 Uncharacterized conserved protein [Function unknown]; Region: COG0398 351605006588 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 351605006589 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 351605006590 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 351605006591 putative active site [active] 351605006592 heme pocket [chemical binding]; other site 351605006593 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 351605006594 putative active site [active] 351605006595 heme pocket [chemical binding]; other site 351605006596 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 351605006597 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 351605006598 putative active site [active] 351605006599 heme pocket [chemical binding]; other site 351605006600 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 351605006601 dimer interface [polypeptide binding]; other site 351605006602 phosphorylation site [posttranslational modification] 351605006603 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 351605006604 ATP binding site [chemical binding]; other site 351605006605 Mg2+ binding site [ion binding]; other site 351605006606 G-X-G motif; other site 351605006607 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 351605006608 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 351605006609 ATP binding site [chemical binding]; other site 351605006610 DEAD_2; Region: DEAD_2; pfam06733 351605006611 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 351605006612 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 351605006613 binding surface 351605006614 TPR motif; other site 351605006615 TPR repeat; Region: TPR_11; pfam13414 351605006616 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 351605006617 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 351605006618 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 351605006619 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 351605006620 substrate binding pocket [chemical binding]; other site 351605006621 membrane-bound complex binding site; other site 351605006622 hinge residues; other site 351605006623 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 351605006624 dimer interface [polypeptide binding]; other site 351605006625 phosphorylation site [posttranslational modification] 351605006626 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 351605006627 ATP binding site [chemical binding]; other site 351605006628 Mg2+ binding site [ion binding]; other site 351605006629 G-X-G motif; other site 351605006630 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 351605006631 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605006632 active site 351605006633 phosphorylation site [posttranslational modification] 351605006634 intermolecular recognition site; other site 351605006635 dimerization interface [polypeptide binding]; other site 351605006636 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 351605006637 Walker A motif; other site 351605006638 ATP binding site [chemical binding]; other site 351605006639 Walker B motif; other site 351605006640 arginine finger; other site 351605006641 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 351605006642 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 351605006643 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605006644 active site 351605006645 phosphorylation site [posttranslational modification] 351605006646 intermolecular recognition site; other site 351605006647 dimerization interface [polypeptide binding]; other site 351605006648 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 351605006649 PAS domain; Region: PAS_9; pfam13426 351605006650 putative active site [active] 351605006651 heme pocket [chemical binding]; other site 351605006652 PAS domain S-box; Region: sensory_box; TIGR00229 351605006653 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 351605006654 putative active site [active] 351605006655 heme pocket [chemical binding]; other site 351605006656 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 351605006657 Histidine kinase; Region: HisKA_2; pfam07568 351605006658 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 351605006659 ATP binding site [chemical binding]; other site 351605006660 Mg2+ binding site [ion binding]; other site 351605006661 G-X-G motif; other site 351605006662 Uncharacterized conserved protein [Function unknown]; Region: COG3287 351605006663 FIST N domain; Region: FIST; pfam08495 351605006664 FIST C domain; Region: FIST_C; pfam10442 351605006665 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 351605006666 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 351605006667 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 351605006668 active site 351605006669 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 351605006670 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 351605006671 FeS/SAM binding site; other site 351605006672 Creatinine amidohydrolase; Region: Creatininase; pfam02633 351605006673 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 351605006674 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 351605006675 acyl-activating enzyme (AAE) consensus motif; other site 351605006676 AMP binding site [chemical binding]; other site 351605006677 active site 351605006678 CoA binding site [chemical binding]; other site 351605006679 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 351605006680 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 351605006681 Walker A/P-loop; other site 351605006682 ATP binding site [chemical binding]; other site 351605006683 Q-loop/lid; other site 351605006684 ABC transporter signature motif; other site 351605006685 Walker B; other site 351605006686 D-loop; other site 351605006687 H-loop/switch region; other site 351605006688 Transposase IS200 like; Region: Y1_Tnp; pfam01797 351605006689 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 351605006690 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 351605006691 Walker A/P-loop; other site 351605006692 ATP binding site [chemical binding]; other site 351605006693 Q-loop/lid; other site 351605006694 ABC transporter signature motif; other site 351605006695 Walker B; other site 351605006696 D-loop; other site 351605006697 H-loop/switch region; other site 351605006698 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 351605006699 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 351605006700 TM-ABC transporter signature motif; other site 351605006701 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 351605006702 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 351605006703 TM-ABC transporter signature motif; other site 351605006704 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 351605006705 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 351605006706 putative ligand binding site [chemical binding]; other site 351605006707 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 351605006708 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 351605006709 putative ligand binding site [chemical binding]; other site 351605006710 ACT domain-containing protein [General function prediction only]; Region: COG4747 351605006711 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 351605006712 C-terminal ACT domain of a novel protein composed of just two ACT domains; Region: ACT_Bt0572_2; cd04882 351605006713 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 351605006714 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 351605006715 acyl-activating enzyme (AAE) consensus motif; other site 351605006716 AMP binding site [chemical binding]; other site 351605006717 active site 351605006718 CoA binding site [chemical binding]; other site 351605006719 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 351605006720 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 351605006721 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 351605006722 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 351605006723 dimer interface [polypeptide binding]; other site 351605006724 PYR/PP interface [polypeptide binding]; other site 351605006725 TPP binding site [chemical binding]; other site 351605006726 substrate binding site [chemical binding]; other site 351605006727 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 351605006728 TPP-binding site; other site 351605006729 4Fe-4S binding domain; Region: Fer4; pfam00037 351605006730 Cytochrome c [Energy production and conversion]; Region: COG3258 351605006731 exopolyphosphatase; Region: exo_poly_only; TIGR03706 351605006732 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 351605006733 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 351605006734 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 351605006735 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 351605006736 PhoU domain; Region: PhoU; pfam01895 351605006737 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 351605006738 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 351605006739 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 351605006740 ligand binding site [chemical binding]; other site 351605006741 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 351605006742 IHF dimer interface [polypeptide binding]; other site 351605006743 IHF - DNA interface [nucleotide binding]; other site 351605006744 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 351605006745 binding surface 351605006746 TPR motif; other site 351605006747 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 351605006748 TRAM domain; Region: TRAM; pfam01938 351605006749 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 351605006750 S-adenosylmethionine binding site [chemical binding]; other site 351605006751 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 351605006752 rRNA binding site [nucleotide binding]; other site 351605006753 predicted 30S ribosome binding site; other site 351605006754 elongation factor P; Validated; Region: PRK00529 351605006755 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 351605006756 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 351605006757 RNA binding site [nucleotide binding]; other site 351605006758 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 351605006759 RNA binding site [nucleotide binding]; other site 351605006760 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 351605006761 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 351605006762 motif 1; other site 351605006763 dimer interface [polypeptide binding]; other site 351605006764 active site 351605006765 motif 2; other site 351605006766 motif 3; other site 351605006767 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 351605006768 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 351605006769 FeS/SAM binding site; other site 351605006770 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 351605006771 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 351605006772 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 351605006773 heterodimer interface [polypeptide binding]; other site 351605006774 active site 351605006775 FMN binding site [chemical binding]; other site 351605006776 homodimer interface [polypeptide binding]; other site 351605006777 substrate binding site [chemical binding]; other site 351605006778 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 351605006779 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 351605006780 FAD binding pocket [chemical binding]; other site 351605006781 FAD binding motif [chemical binding]; other site 351605006782 phosphate binding motif [ion binding]; other site 351605006783 beta-alpha-beta structure motif; other site 351605006784 NAD binding pocket [chemical binding]; other site 351605006785 Iron coordination center [ion binding]; other site 351605006786 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 351605006787 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 351605006788 Coenzyme A binding pocket [chemical binding]; other site 351605006789 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 351605006790 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 351605006791 dimerization interface [polypeptide binding]; other site 351605006792 putative ATP binding site [chemical binding]; other site 351605006793 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 351605006794 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 351605006795 active site 351605006796 substrate binding site [chemical binding]; other site 351605006797 cosubstrate binding site; other site 351605006798 catalytic site [active] 351605006799 TPR repeat; Region: TPR_11; pfam13414 351605006800 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 351605006801 binding surface 351605006802 TPR motif; other site 351605006803 TPR repeat; Region: TPR_11; pfam13414 351605006804 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 351605006805 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 351605006806 putative active site [active] 351605006807 putative NTP binding site [chemical binding]; other site 351605006808 putative nucleic acid binding site [nucleotide binding]; other site 351605006809 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 351605006810 Transposase, Mutator family; Region: Transposase_mut; pfam00872 351605006811 MULE transposase domain; Region: MULE; pfam10551 351605006812 TPR repeat; Region: TPR_11; pfam13414 351605006813 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 351605006814 binding surface 351605006815 TPR motif; other site 351605006816 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 351605006817 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 351605006818 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 351605006819 Sporulation related domain; Region: SPOR; pfam05036 351605006820 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 351605006821 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 351605006822 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 351605006823 Transcriptional regulator; Region: Rrf2; cl17282 351605006824 Rrf2 family protein; Region: rrf2_super; TIGR00738 351605006825 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 351605006826 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605006827 active site 351605006828 phosphorylation site [posttranslational modification] 351605006829 intermolecular recognition site; other site 351605006830 dimerization interface [polypeptide binding]; other site 351605006831 CheB methylesterase; Region: CheB_methylest; pfam01339 351605006832 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 351605006833 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 351605006834 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 351605006835 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 351605006836 HAMP domain; Region: HAMP; pfam00672 351605006837 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 351605006838 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 351605006839 dimer interface [polypeptide binding]; other site 351605006840 putative CheW interface [polypeptide binding]; other site 351605006841 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 351605006842 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 351605006843 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 351605006844 putative binding surface; other site 351605006845 active site 351605006846 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 351605006847 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 351605006848 ATP binding site [chemical binding]; other site 351605006849 Mg2+ binding site [ion binding]; other site 351605006850 G-X-G motif; other site 351605006851 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 351605006852 STAS domain; Region: STAS_2; pfam13466 351605006853 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 351605006854 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605006855 active site 351605006856 phosphorylation site [posttranslational modification] 351605006857 intermolecular recognition site; other site 351605006858 dimerization interface [polypeptide binding]; other site 351605006859 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 351605006860 Walker A motif; other site 351605006861 ATP binding site [chemical binding]; other site 351605006862 Walker B motif; other site 351605006863 arginine finger; other site 351605006864 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 351605006865 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 351605006866 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 351605006867 putative active site [active] 351605006868 heme pocket [chemical binding]; other site 351605006869 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 351605006870 ATP binding site [chemical binding]; other site 351605006871 Mg2+ binding site [ion binding]; other site 351605006872 G-X-G motif; other site 351605006873 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 351605006874 TPR repeat; Region: TPR_11; pfam13414 351605006875 binding surface 351605006876 TPR motif; other site 351605006877 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 351605006878 binding surface 351605006879 TPR motif; other site 351605006880 Tetratricopeptide repeat; Region: TPR_16; pfam13432 351605006881 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 351605006882 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 351605006883 HSP70 interaction site [polypeptide binding]; other site 351605006884 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 351605006885 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 351605006886 TPP-binding site; other site 351605006887 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 351605006888 PYR/PP interface [polypeptide binding]; other site 351605006889 dimer interface [polypeptide binding]; other site 351605006890 TPP binding site [chemical binding]; other site 351605006891 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 351605006892 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 351605006893 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 351605006894 substrate binding pocket [chemical binding]; other site 351605006895 chain length determination region; other site 351605006896 substrate-Mg2+ binding site; other site 351605006897 catalytic residues [active] 351605006898 aspartate-rich region 1; other site 351605006899 active site lid residues [active] 351605006900 aspartate-rich region 2; other site 351605006901 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK14066 351605006902 homoserine dehydrogenase; Provisional; Region: PRK06349 351605006903 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 351605006904 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 351605006905 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 351605006906 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 351605006907 putative RNA binding site [nucleotide binding]; other site 351605006908 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 351605006909 homopentamer interface [polypeptide binding]; other site 351605006910 active site 351605006911 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 351605006912 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 351605006913 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 351605006914 dimerization interface [polypeptide binding]; other site 351605006915 active site 351605006916 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 351605006917 Lumazine binding domain; Region: Lum_binding; pfam00677 351605006918 Lumazine binding domain; Region: Lum_binding; pfam00677 351605006919 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 351605006920 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 351605006921 catalytic motif [active] 351605006922 Zn binding site [ion binding]; other site 351605006923 RibD C-terminal domain; Region: RibD_C; cl17279 351605006924 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 351605006925 ATP cone domain; Region: ATP-cone; pfam03477 351605006926 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 351605006927 catalytic motif [active] 351605006928 Zn binding site [ion binding]; other site 351605006929 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 351605006930 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 351605006931 Zn2+ binding site [ion binding]; other site 351605006932 Mg2+ binding site [ion binding]; other site 351605006933 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 351605006934 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 351605006935 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 351605006936 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 351605006937 TPP-binding site [chemical binding]; other site 351605006938 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated; Region: PRK08659 351605006939 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 351605006940 dimer interface [polypeptide binding]; other site 351605006941 PYR/PP interface [polypeptide binding]; other site 351605006942 TPP binding site [chemical binding]; other site 351605006943 substrate binding site [chemical binding]; other site 351605006944 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 351605006945 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 351605006946 malate dehydrogenase; Reviewed; Region: PRK06223 351605006947 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 351605006948 NAD(P) binding site [chemical binding]; other site 351605006949 dimer interface [polypeptide binding]; other site 351605006950 tetramer (dimer of dimers) interface [polypeptide binding]; other site 351605006951 substrate binding site [chemical binding]; other site 351605006952 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 351605006953 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 351605006954 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 351605006955 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 351605006956 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 351605006957 dimer interface [polypeptide binding]; other site 351605006958 anticodon binding site; other site 351605006959 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 351605006960 homodimer interface [polypeptide binding]; other site 351605006961 motif 1; other site 351605006962 active site 351605006963 motif 2; other site 351605006964 GAD domain; Region: GAD; pfam02938 351605006965 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 351605006966 motif 3; other site 351605006967 Transcriptional regulators [Transcription]; Region: FadR; COG2186 351605006968 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 351605006969 DNA-binding site [nucleotide binding]; DNA binding site 351605006970 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 351605006971 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 351605006972 Cysteine-rich domain; Region: CCG; pfam02754 351605006973 Cysteine-rich domain; Region: CCG; pfam02754 351605006974 FAD binding domain; Region: FAD_binding_4; pfam01565 351605006975 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 351605006976 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 351605006977 L-lactate permease; Region: Lactate_perm; cl00701 351605006978 L-lactate permease; Region: Lactate_perm; cl00701 351605006979 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 351605006980 Homeodomain-like domain; Region: HTH_32; pfam13565 351605006981 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 351605006982 Integrase core domain; Region: rve; pfam00665 351605006983 Integrase core domain; Region: rve_3; pfam13683 351605006984 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 351605006985 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 351605006986 tandem repeat interface [polypeptide binding]; other site 351605006987 oligomer interface [polypeptide binding]; other site 351605006988 active site residues [active] 351605006989 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 351605006990 Superoxide reductase-like (SORL) domain, class II; SORL-domains are present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals...; Region: SORL_classII; cd03172 351605006991 non-heme iron binding site [ion binding]; other site 351605006992 tetramer interface [polypeptide binding]; other site 351605006993 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 351605006994 Prokaryotic E2 family B; Region: Prok-E2_B; pfam14461 351605006995 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; cd01483 351605006996 ATP binding site [chemical binding]; other site 351605006997 Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme; Region: NT_2-5OAS_ClassI-CCAase; cd05400 351605006998 active site 351605006999 NTP binding site [chemical binding]; other site 351605007000 metal binding triad [ion binding]; metal-binding site 351605007001 Domain of unknown function (DUF955); Region: DUF955; pfam06114 351605007002 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 351605007003 YgiT-type zinc finger domain; Region: YgiT_finger; TIGR03831 351605007004 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 351605007005 non-specific DNA binding site [nucleotide binding]; other site 351605007006 salt bridge; other site 351605007007 sequence-specific DNA binding site [nucleotide binding]; other site 351605007008 Protein of unknown function (DUF3793); Region: DUF3793; pfam12672 351605007009 Vitamin K epoxide reductase (VKOR) family in bacteria; Region: VKOR_4; cd12921 351605007010 putative active site [active] 351605007011 redox center [active] 351605007012 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 351605007013 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 351605007014 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 351605007015 active site 351605007016 HIGH motif; other site 351605007017 nucleotide binding site [chemical binding]; other site 351605007018 active site 351605007019 KMSKS motif; other site 351605007020 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 351605007021 glutamine synthetase, type I; Region: GlnA; TIGR00653 351605007022 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 351605007023 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 351605007024 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 351605007025 Nitrogen regulatory protein P-II; Region: P-II; smart00938 351605007026 2-dehydropantoate 2-reductase; Provisional; Region: PRK06249 351605007027 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 351605007028 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 351605007029 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 351605007030 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 351605007031 Peptidase family M23; Region: Peptidase_M23; pfam01551 351605007032 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 351605007033 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 351605007034 ATP binding site [chemical binding]; other site 351605007035 putative Mg++ binding site [ion binding]; other site 351605007036 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 351605007037 nucleotide binding region [chemical binding]; other site 351605007038 ATP-binding site [chemical binding]; other site 351605007039 Helicase associated domain (HA2); Region: HA2; pfam04408 351605007040 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 351605007041 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 351605007042 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 351605007043 motif II; other site 351605007044 PAP2_like_5 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_5; cd03394 351605007045 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 351605007046 active site 351605007047 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 351605007048 Chain length determinant protein; Region: Wzz; pfam02706 351605007049 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 351605007050 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 351605007051 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 351605007052 SLBB domain; Region: SLBB; pfam10531 351605007053 SLBB domain; Region: SLBB; pfam10531 351605007054 SLBB domain; Region: SLBB; pfam10531 351605007055 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 351605007056 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 351605007057 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]; Region: PorB; COG1013 351605007058 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 351605007059 TPP-binding site [chemical binding]; other site 351605007060 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 351605007061 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 351605007062 dimer interface [polypeptide binding]; other site 351605007063 PYR/PP interface [polypeptide binding]; other site 351605007064 TPP binding site [chemical binding]; other site 351605007065 substrate binding site [chemical binding]; other site 351605007066 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 351605007067 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 351605007068 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 351605007069 biotin synthase; Region: bioB; TIGR00433 351605007070 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 351605007071 FeS/SAM binding site; other site 351605007072 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 351605007073 AAA domain; Region: AAA_26; pfam13500 351605007074 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 351605007075 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 351605007076 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 351605007077 inhibitor-cofactor binding pocket; inhibition site 351605007078 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351605007079 catalytic residue [active] 351605007080 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 351605007081 DHH family; Region: DHH; pfam01368 351605007082 FOG: CBS domain [General function prediction only]; Region: COG0517 351605007083 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 351605007084 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 351605007085 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 351605007086 active site 351605007087 NTP binding site [chemical binding]; other site 351605007088 metal binding triad [ion binding]; metal-binding site 351605007089 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 351605007090 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 351605007091 putative ligand binding pocket/active site [active] 351605007092 putative metal binding site [ion binding]; other site 351605007093 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 351605007094 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 351605007095 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 351605007096 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 351605007097 active site 351605007098 HIGH motif; other site 351605007099 dimer interface [polypeptide binding]; other site 351605007100 KMSKS motif; other site 351605007101 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 351605007102 Peptidase family M50; Region: Peptidase_M50; pfam02163 351605007103 active site 351605007104 putative substrate binding region [chemical binding]; other site 351605007105 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 351605007106 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 351605007107 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 351605007108 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 351605007109 RNA binding site [nucleotide binding]; other site 351605007110 REJ domain; Region: REJ; pfam02010 351605007111 REJ domain; Region: REJ; pfam02010 351605007112 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 351605007113 active site 351605007114 dimerization interface [polypeptide binding]; other site 351605007115 ribonuclease PH; Reviewed; Region: rph; PRK00173 351605007116 Ribonuclease PH; Region: RNase_PH_bact; cd11362 351605007117 hexamer interface [polypeptide binding]; other site 351605007118 active site 351605007119 Right handed beta helix region; Region: Beta_helix; pfam13229 351605007120 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 351605007121 GAF domain; Region: GAF; pfam01590 351605007122 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351605007123 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351605007124 metal binding site [ion binding]; metal-binding site 351605007125 active site 351605007126 I-site; other site 351605007127 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08665 351605007128 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 351605007129 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 351605007130 active site 351605007131 dimer interface [polypeptide binding]; other site 351605007132 effector binding site; other site 351605007133 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 351605007134 TSCPD domain; Region: TSCPD; pfam12637 351605007135 Transposase IS200 like; Region: Y1_Tnp; cl00848 351605007136 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 351605007137 non-specific DNA binding site [nucleotide binding]; other site 351605007138 salt bridge; other site 351605007139 sequence-specific DNA binding site [nucleotide binding]; other site 351605007140 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_7; cd08353 351605007141 putative dimer interface [polypeptide binding]; other site 351605007142 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 351605007143 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 351605007144 Transposase; Region: DDE_Tnp_ISL3; pfam01610 351605007145 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 351605007146 trimer interface [polypeptide binding]; other site 351605007147 putative Zn binding site [ion binding]; other site 351605007148 Cupin domain; Region: Cupin_2; pfam07883 351605007149 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 351605007150 Protein of unknown function (DUF497); Region: DUF497; pfam04365 351605007151 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 351605007152 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_5; cd03408 351605007153 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 351605007154 Transcription factor zinc-finger; Region: zf-TFIIB; pfam13453 351605007155 Transcription factor zinc-finger; Region: zf-TFIIB; pfam13453 351605007156 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 351605007157 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 351605007158 active site 351605007159 Rubrerythrin [Energy production and conversion]; Region: COG1592 351605007160 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 351605007161 binuclear metal center [ion binding]; other site 351605007162 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 351605007163 iron binding site [ion binding]; other site 351605007164 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 351605007165 GIY-YIG motif/motif A; other site 351605007166 putative active site [active] 351605007167 putative metal binding site [ion binding]; other site 351605007168 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 351605007169 Membrane protein of unknown function; Region: DUF360; pfam04020 351605007170 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 351605007171 PAS domain; Region: PAS_9; pfam13426 351605007172 putative active site [active] 351605007173 heme pocket [chemical binding]; other site 351605007174 PAS domain S-box; Region: sensory_box; TIGR00229 351605007175 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 351605007176 putative active site [active] 351605007177 heme pocket [chemical binding]; other site 351605007178 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 351605007179 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 351605007180 putative active site [active] 351605007181 heme pocket [chemical binding]; other site 351605007182 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 351605007183 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 351605007184 putative active site [active] 351605007185 heme pocket [chemical binding]; other site 351605007186 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 351605007187 putative active site [active] 351605007188 heme pocket [chemical binding]; other site 351605007189 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 351605007190 dimer interface [polypeptide binding]; other site 351605007191 phosphorylation site [posttranslational modification] 351605007192 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 351605007193 ATP binding site [chemical binding]; other site 351605007194 Mg2+ binding site [ion binding]; other site 351605007195 G-X-G motif; other site 351605007196 Uncharacterized Fe-S protein PflX, homolog of pyruvate formate lyase activating proteins [General function prediction only]; Region: PflX; COG1313 351605007197 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 351605007198 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 351605007199 catalytic residues [active] 351605007200 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 351605007201 Transposase; Region: DDE_Tnp_ISL3; pfam01610 351605007202 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 351605007203 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 351605007204 tandem repeat interface [polypeptide binding]; other site 351605007205 oligomer interface [polypeptide binding]; other site 351605007206 active site residues [active] 351605007207 Predicted phosphoesterases, related to the Icc protein [General function prediction only]; Region: COG2129 351605007208 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 351605007209 active site 351605007210 metal binding site [ion binding]; metal-binding site 351605007211 homotetramer interface [polypeptide binding]; other site 351605007212 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 351605007213 active site 351605007214 phosphorylation site [posttranslational modification] 351605007215 intermolecular recognition site; other site 351605007216 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 351605007217 zinc binding site [ion binding]; other site 351605007218 putative ligand binding site [chemical binding]; other site 351605007219 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 351605007220 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 351605007221 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 351605007222 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 351605007223 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 351605007224 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 351605007225 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 351605007226 Walker A/P-loop; other site 351605007227 ATP binding site [chemical binding]; other site 351605007228 Q-loop/lid; other site 351605007229 ABC transporter signature motif; other site 351605007230 Walker B; other site 351605007231 D-loop; other site 351605007232 H-loop/switch region; other site 351605007233 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 351605007234 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 351605007235 TPR motif; other site 351605007236 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 351605007237 Class I histone deacetylase AcuC (Acetoin utilization protein)-like enzymes; Region: HDAC_AcuC_like; cd09994 351605007238 active site 351605007239 Zn binding site [ion binding]; other site 351605007240 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 351605007241 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 351605007242 Response regulator receiver domain; Region: Response_reg; pfam00072 351605007243 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605007244 active site 351605007245 phosphorylation site [posttranslational modification] 351605007246 intermolecular recognition site; other site 351605007247 dimerization interface [polypeptide binding]; other site 351605007248 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 351605007249 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 351605007250 active site 351605007251 HIGH motif; other site 351605007252 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 351605007253 active site 351605007254 KMSKS motif; other site 351605007255 Domain of unknown function (DUF329); Region: DUF329; pfam03884 351605007256 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 351605007257 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 351605007258 NAD(P) binding site [chemical binding]; other site 351605007259 active site 351605007260 Sporulation related domain; Region: SPOR; pfam05036 351605007261 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 351605007262 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 351605007263 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 351605007264 active site 351605007265 HIGH motif; other site 351605007266 KMSK motif region; other site 351605007267 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 351605007268 tRNA binding surface [nucleotide binding]; other site 351605007269 anticodon binding site; other site 351605007270 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 351605007271 Septum formation initiator; Region: DivIC; pfam04977 351605007272 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 351605007273 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 351605007274 NAD binding site [chemical binding]; other site 351605007275 putative substrate binding site 2 [chemical binding]; other site 351605007276 putative substrate binding site 1 [chemical binding]; other site 351605007277 active site 351605007278 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 351605007279 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 351605007280 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 351605007281 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 351605007282 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 351605007283 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 351605007284 S-adenosylmethionine binding site [chemical binding]; other site 351605007285 UGMP family protein; Validated; Region: PRK09604 351605007286 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 351605007287 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 351605007288 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 351605007289 putative active site [active] 351605007290 PhoH-like protein; Region: PhoH; pfam02562 351605007291 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 351605007292 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 351605007293 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 351605007294 catalytic residue [active] 351605007295 DHH family; Region: DHH; pfam01368 351605007296 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]; Region: SUA7; COG1405 351605007297 SLBB domain; Region: SLBB; pfam10531 351605007298 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 351605007299 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 351605007300 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 351605007301 active site 351605007302 catalytic residues [active] 351605007303 metal binding site [ion binding]; metal-binding site 351605007304 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 351605007305 aspartate kinase; Reviewed; Region: PRK06635 351605007306 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 351605007307 putative nucleotide binding site [chemical binding]; other site 351605007308 putative catalytic residues [active] 351605007309 putative Mg ion binding site [ion binding]; other site 351605007310 putative aspartate binding site [chemical binding]; other site 351605007311 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 351605007312 putative allosteric regulatory site; other site 351605007313 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 351605007314 putative allosteric regulatory residue; other site 351605007315 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 351605007316 FOG: CBS domain [General function prediction only]; Region: COG0517 351605007317 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 351605007318 putative carbohydrate kinase; Provisional; Region: PRK10565 351605007319 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 351605007320 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 351605007321 putative substrate binding site [chemical binding]; other site 351605007322 putative ATP binding site [chemical binding]; other site 351605007323 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK14656 351605007324 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 351605007325 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 351605007326 ligand binding site [chemical binding]; other site 351605007327 flexible hinge region; other site 351605007328 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 351605007329 putative switch regulator; other site 351605007330 non-specific DNA interactions [nucleotide binding]; other site 351605007331 DNA binding site [nucleotide binding] 351605007332 sequence specific DNA binding site [nucleotide binding]; other site 351605007333 putative cAMP binding site [chemical binding]; other site 351605007334 PEP-CTERM-box response regulator transcription factor; Region: PEP_resp_reg; TIGR02915 351605007335 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605007336 active site 351605007337 phosphorylation site [posttranslational modification] 351605007338 intermolecular recognition site; other site 351605007339 dimerization interface [polypeptide binding]; other site 351605007340 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 351605007341 Walker A motif; other site 351605007342 ATP binding site [chemical binding]; other site 351605007343 Walker B motif; other site 351605007344 arginine finger; other site 351605007345 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 351605007346 putative PEP-CTERM system histidine kinase; Region: PEP_his_kin; TIGR02916 351605007347 GAF domain; Region: GAF_3; pfam13492 351605007348 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 351605007349 ATP binding site [chemical binding]; other site 351605007350 G-X-G motif; other site 351605007351 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 351605007352 Transposase; Region: DDE_Tnp_ISL3; pfam01610 351605007353 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 351605007354 Interdomain contacts; other site 351605007355 Cytokine receptor motif; other site 351605007356 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 351605007357 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 351605007358 Interdomain contacts; other site 351605007359 Cytokine receptor motif; other site 351605007360 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 351605007361 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 351605007362 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 351605007363 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 351605007364 putative ADP-binding pocket [chemical binding]; other site 351605007365 CESA_like_1 is a member of the cellulose synthase (CESA) superfamily; Region: CESA_like_1; cd06439 351605007366 DXD motif; other site 351605007367 Polysaccharide lyase; Region: Polysacc_lyase; pfam14099 351605007368 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 351605007369 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 351605007370 active site 351605007371 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 351605007372 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 351605007373 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 351605007374 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 351605007375 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 351605007376 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 351605007377 Putative catalytic NodB homology domain of a hypothetical protein Ecf1 from Escherichia coli and similar proteins; Region: CE4_Ecf1_like_5s; cd10969 351605007378 putative active site [active] 351605007379 putative metal binding site [ion binding]; other site 351605007380 Low molecular weight phosphatase family; Region: LMWPc; cl00105 351605007381 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 351605007382 active site 351605007383 O-Antigen ligase; Region: Wzy_C; cl04850 351605007384 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 351605007385 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 351605007386 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 351605007387 putative ADP-binding pocket [chemical binding]; other site 351605007388 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 351605007389 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 351605007390 active site 351605007391 Protein of unknown function (DUF3485); Region: DUF3485; pfam11984 351605007392 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 351605007393 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; pfam09721 351605007394 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 351605007395 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 351605007396 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 351605007397 catalytic residue [active] 351605007398 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 351605007399 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 351605007400 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 351605007401 active site 351605007402 Glycosyl hydrolase family 99-like domain of WbsX-like glycosyltransferases; Region: Glyco_tran_WbsX; cd11579 351605007403 putative ligand binding site [chemical binding]; other site 351605007404 putative catalytic site [active] 351605007405 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 351605007406 active site 351605007407 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 351605007408 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 351605007409 active site 351605007410 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 351605007411 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 351605007412 inhibitor-cofactor binding pocket; inhibition site 351605007413 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351605007414 catalytic residue [active] 351605007415 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 351605007416 AMP-binding enzyme; Region: AMP-binding; pfam00501 351605007417 acyl-activating enzyme (AAE) consensus motif; other site 351605007418 AMP binding site [chemical binding]; other site 351605007419 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 351605007420 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 351605007421 active site 351605007422 agmatinase; Region: agmatinase; TIGR01230 351605007423 Agmatinase-like family; Region: Agmatinase-like; cd09990 351605007424 active site 351605007425 oligomer interface [polypeptide binding]; other site 351605007426 Mn binding site [ion binding]; other site 351605007427 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 351605007428 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 351605007429 putative trimer interface [polypeptide binding]; other site 351605007430 putative CoA binding site [chemical binding]; other site 351605007431 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 351605007432 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 351605007433 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 351605007434 Walker A/P-loop; other site 351605007435 ATP binding site [chemical binding]; other site 351605007436 Q-loop/lid; other site 351605007437 ABC transporter signature motif; other site 351605007438 Walker B; other site 351605007439 D-loop; other site 351605007440 H-loop/switch region; other site 351605007441 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 351605007442 putative carbohydrate binding site [chemical binding]; other site 351605007443 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 351605007444 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 351605007445 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases and Helicobacter pylori peptidoglycan deacetylase (HpPgdA); Region: CE4_PuuE_HpPgdA_like_2; cd10941 351605007446 polysaccharide deacetylase family protein, PEP-CTERM locus subfamily; Region: pepcterm_polyde; TIGR03006 351605007447 putative active site [active] 351605007448 putative catalytic site [active] 351605007449 uncharacterized protein, PEP-CTERM system associated; Region: pepcterm_hypo_1; TIGR03016 351605007450 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 351605007451 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 351605007452 Walker A motif; other site 351605007453 ATP binding site [chemical binding]; other site 351605007454 Walker B motif; other site 351605007455 arginine finger; other site 351605007456 exopolysaccharide/PEP-CTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 351605007457 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 351605007458 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 351605007459 Chain length determinant protein; Region: Wzz; cl15801 351605007460 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 351605007461 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 351605007462 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 351605007463 SLBB domain; Region: SLBB; pfam10531 351605007464 sugar transferase, PEP-CTERM system associated; Region: EpsB_2; TIGR03013 351605007465 Bacterial sugar transferase; Region: Bac_transf; pfam02397 351605007466 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 351605007467 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 351605007468 binding surface 351605007469 TPR motif; other site 351605007470 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 351605007471 binding surface 351605007472 TPR motif; other site 351605007473 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 351605007474 binding surface 351605007475 TPR motif; other site 351605007476 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 351605007477 binding surface 351605007478 TPR motif; other site 351605007479 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 351605007480 binding surface 351605007481 TPR motif; other site 351605007482 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 351605007483 TPR motif; other site 351605007484 binding surface 351605007485 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 351605007486 binding surface 351605007487 TPR motif; other site 351605007488 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 351605007489 TPR motif; other site 351605007490 binding surface 351605007491 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 351605007492 TPR motif; other site 351605007493 binding surface 351605007494 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 351605007495 binding surface 351605007496 TPR motif; other site 351605007497 CAAX prenyl protease-related protein; Region: pepcterm_CAAX; TIGR03008 351605007498 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 351605007499 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 351605007500 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 351605007501 Protein export membrane protein; Region: SecD_SecF; cl14618 351605007502 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 351605007503 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 351605007504 HlyD family secretion protein; Region: HlyD_3; pfam13437 351605007505 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 351605007506 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605007507 active site 351605007508 phosphorylation site [posttranslational modification] 351605007509 intermolecular recognition site; other site 351605007510 dimerization interface [polypeptide binding]; other site 351605007511 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 351605007512 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 351605007513 putative active site [active] 351605007514 heme pocket [chemical binding]; other site 351605007515 histidine kinase; Provisional; Region: PRK13557 351605007516 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 351605007517 putative active site [active] 351605007518 heme pocket [chemical binding]; other site 351605007519 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 351605007520 dimer interface [polypeptide binding]; other site 351605007521 phosphorylation site [posttranslational modification] 351605007522 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 351605007523 ATP binding site [chemical binding]; other site 351605007524 Mg2+ binding site [ion binding]; other site 351605007525 G-X-G motif; other site 351605007526 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605007527 active site 351605007528 phosphorylation site [posttranslational modification] 351605007529 intermolecular recognition site; other site 351605007530 dimerization interface [polypeptide binding]; other site 351605007531 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 351605007532 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605007533 active site 351605007534 phosphorylation site [posttranslational modification] 351605007535 intermolecular recognition site; other site 351605007536 dimerization interface [polypeptide binding]; other site 351605007537 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 351605007538 Zn2+ binding site [ion binding]; other site 351605007539 Mg2+ binding site [ion binding]; other site 351605007540 acetoacetate metabolism regulatory protein AtoC; Provisional; Region: PRK11361 351605007541 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605007542 active site 351605007543 phosphorylation site [posttranslational modification] 351605007544 intermolecular recognition site; other site 351605007545 dimerization interface [polypeptide binding]; other site 351605007546 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 351605007547 Walker A motif; other site 351605007548 ATP binding site [chemical binding]; other site 351605007549 Walker B motif; other site 351605007550 arginine finger; other site 351605007551 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 351605007552 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 351605007553 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 351605007554 putative active site [active] 351605007555 putative NTP binding site [chemical binding]; other site 351605007556 putative nucleic acid binding site [nucleotide binding]; other site 351605007557 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 351605007558 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 351605007559 AMP binding site [chemical binding]; other site 351605007560 metal binding site [ion binding]; metal-binding site 351605007561 active site 351605007562 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 351605007563 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 351605007564 iron-sulfur cluster [ion binding]; other site 351605007565 [2Fe-2S] cluster binding site [ion binding]; other site 351605007566 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 351605007567 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 351605007568 intrachain domain interface; other site 351605007569 interchain domain interface [polypeptide binding]; other site 351605007570 heme bH binding site [chemical binding]; other site 351605007571 Qi binding site; other site 351605007572 heme bL binding site [chemical binding]; other site 351605007573 Qo binding site; other site 351605007574 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cl00193 351605007575 interchain domain interface [polypeptide binding]; other site 351605007576 intrachain domain interface; other site 351605007577 Qi binding site; other site 351605007578 Qo binding site; other site 351605007579 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 351605007580 cofactor-independent phosphoglycerate mutase; Provisional; Region: PRK04200 351605007581 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: PhosphMutase; cl17294 351605007582 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 351605007583 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 351605007584 active site 351605007585 Int/Topo IB signature motif; other site 351605007586 PII uridylyl-transferase; Provisional; Region: PRK05092 351605007587 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 351605007588 metal binding triad; other site 351605007589 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 351605007590 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 351605007591 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 351605007592 AMIN domain; Region: AMIN; pfam11741 351605007593 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 351605007594 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 351605007595 active site 351605007596 metal binding site [ion binding]; metal-binding site 351605007597 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 351605007598 MutS domain I; Region: MutS_I; pfam01624 351605007599 MutS domain II; Region: MutS_II; pfam05188 351605007600 MutS domain III; Region: MutS_III; pfam05192 351605007601 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 351605007602 Walker A/P-loop; other site 351605007603 ATP binding site [chemical binding]; other site 351605007604 Q-loop/lid; other site 351605007605 ABC transporter signature motif; other site 351605007606 Walker B; other site 351605007607 D-loop; other site 351605007608 H-loop/switch region; other site 351605007609 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 351605007610 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605007611 active site 351605007612 phosphorylation site [posttranslational modification] 351605007613 intermolecular recognition site; other site 351605007614 dimerization interface [polypeptide binding]; other site 351605007615 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 351605007616 Walker A motif; other site 351605007617 ATP binding site [chemical binding]; other site 351605007618 Walker B motif; other site 351605007619 arginine finger; other site 351605007620 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 351605007621 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 351605007622 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 351605007623 PAS domain; Region: PAS_9; pfam13426 351605007624 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 351605007625 dimer interface [polypeptide binding]; other site 351605007626 phosphorylation site [posttranslational modification] 351605007627 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 351605007628 ATP binding site [chemical binding]; other site 351605007629 Mg2+ binding site [ion binding]; other site 351605007630 G-X-G motif; other site 351605007631 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 351605007632 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 351605007633 active site 351605007634 NAD binding site [chemical binding]; other site 351605007635 metal binding site [ion binding]; metal-binding site 351605007636 Fibronectin type 3 domain; Region: FN3; smart00060 351605007637 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 351605007638 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 351605007639 Putative transposase; Region: Y2_Tnp; pfam04986 351605007640 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 351605007641 Transposase; Region: DDE_Tnp_ISL3; pfam01610 351605007642 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 351605007643 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 351605007644 putative active site [active] 351605007645 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 351605007646 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 351605007647 active site 351605007648 purine riboside binding site [chemical binding]; other site 351605007649 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 351605007650 Helix-turn-helix domain; Region: HTH_17; cl17695 351605007651 Protein of unknown function (DUF3309); Region: DUF3309; pfam11752 351605007652 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 351605007653 CsbD-like; Region: CsbD; pfam05532 351605007654 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 351605007655 dimer interface [polypeptide binding]; other site 351605007656 BON domain; Region: BON; pfam04972 351605007657 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 351605007658 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 351605007659 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 351605007660 putative MPT binding site; other site 351605007661 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 351605007662 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 351605007663 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 351605007664 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 351605007665 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 351605007666 FAD binding pocket [chemical binding]; other site 351605007667 FAD binding motif [chemical binding]; other site 351605007668 phosphate binding motif [ion binding]; other site 351605007669 beta-alpha-beta structure motif; other site 351605007670 NAD binding pocket [chemical binding]; other site 351605007671 Iron coordination center [ion binding]; other site 351605007672 putative metalloenzyme radical SAM/SPASM domain maturase; Region: rSAM_Geo_metal; TIGR04311 351605007673 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 351605007674 FeS/SAM binding site; other site 351605007675 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 351605007676 4Fe-4S binding domain; Region: Fer4; cl02805 351605007677 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 351605007678 Cysteine-rich domain; Region: CCG; pfam02754 351605007679 Cysteine-rich domain; Region: CCG; pfam02754 351605007680 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 351605007681 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 351605007682 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 351605007683 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 351605007684 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 351605007685 Ligand binding site [chemical binding]; other site 351605007686 Electron transfer flavoprotein domain; Region: ETF; pfam01012 351605007687 MOSC domain; Region: MOSC; pfam03473 351605007688 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 351605007689 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 351605007690 FeS/SAM binding site; other site 351605007691 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 351605007692 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 351605007693 putative alcohol dehydrogenase; Provisional; Region: PRK09860 351605007694 dimer interface [polypeptide binding]; other site 351605007695 active site 351605007696 metal binding site [ion binding]; metal-binding site 351605007697 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 351605007698 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 351605007699 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 351605007700 Ubiquitin-like proteins; Region: UBQ; cl00155 351605007701 charged pocket; other site 351605007702 hydrophobic patch; other site 351605007703 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 351605007704 hypothetical protein; Provisional; Region: PRK08328 351605007705 ATP binding site [chemical binding]; other site 351605007706 substrate interface [chemical binding]; other site 351605007707 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 351605007708 putative geopeptide radical SAM maturase; Region: geopep_mat_rSAM; TIGR04280 351605007709 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 351605007710 FeS/SAM binding site; other site 351605007711 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 351605007712 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 351605007713 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 351605007714 N-terminal plug; other site 351605007715 ligand-binding site [chemical binding]; other site 351605007716 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 351605007717 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 351605007718 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 351605007719 dimerization interface [polypeptide binding]; other site 351605007720 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 351605007721 dimer interface [polypeptide binding]; other site 351605007722 phosphorylation site [posttranslational modification] 351605007723 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 351605007724 ATP binding site [chemical binding]; other site 351605007725 Mg2+ binding site [ion binding]; other site 351605007726 G-X-G motif; other site 351605007727 Response regulator receiver domain; Region: Response_reg; pfam00072 351605007728 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605007729 active site 351605007730 phosphorylation site [posttranslational modification] 351605007731 intermolecular recognition site; other site 351605007732 dimerization interface [polypeptide binding]; other site 351605007733 Transglycosylase; Region: Transgly; pfam00912 351605007734 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 351605007735 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 351605007736 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; pfam09723 351605007737 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 351605007738 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 351605007739 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 351605007740 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 351605007741 FMN binding site [chemical binding]; other site 351605007742 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 351605007743 dimer interface [polypeptide binding]; other site 351605007744 dimer interface [polypeptide binding]; other site 351605007745 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 351605007746 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 351605007747 Walker A/P-loop; other site 351605007748 ATP binding site [chemical binding]; other site 351605007749 Q-loop/lid; other site 351605007750 ABC transporter signature motif; other site 351605007751 Walker B; other site 351605007752 D-loop; other site 351605007753 H-loop/switch region; other site 351605007754 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 351605007755 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 351605007756 FtsX-like permease family; Region: FtsX; pfam02687 351605007757 Histidine kinase; Region: His_kinase; pfam06580 351605007758 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 351605007759 ATP binding site [chemical binding]; other site 351605007760 Mg2+ binding site [ion binding]; other site 351605007761 G-X-G motif; other site 351605007762 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 351605007763 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605007764 active site 351605007765 phosphorylation site [posttranslational modification] 351605007766 intermolecular recognition site; other site 351605007767 dimerization interface [polypeptide binding]; other site 351605007768 LytTr DNA-binding domain; Region: LytTR; smart00850 351605007769 Methyltransferase domain; Region: Methyltransf_31; pfam13847 351605007770 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 351605007771 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 351605007772 dimerization interface [polypeptide binding]; other site 351605007773 putative DNA binding site [nucleotide binding]; other site 351605007774 putative Zn2+ binding site [ion binding]; other site 351605007775 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 351605007776 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 351605007777 tetramer interface [polypeptide binding]; other site 351605007778 active site 351605007779 Mg2+/Mn2+ binding site [ion binding]; other site 351605007780 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 351605007781 putative substrate translocation pore; other site 351605007782 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 351605007783 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 351605007784 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 351605007785 DNA-binding site [nucleotide binding]; DNA binding site 351605007786 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 351605007787 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351605007788 homodimer interface [polypeptide binding]; other site 351605007789 catalytic residue [active] 351605007790 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 351605007791 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 351605007792 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 351605007793 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 351605007794 Walker A/P-loop; other site 351605007795 ATP binding site [chemical binding]; other site 351605007796 Q-loop/lid; other site 351605007797 ABC transporter signature motif; other site 351605007798 Walker B; other site 351605007799 D-loop; other site 351605007800 H-loop/switch region; other site 351605007801 Chagasin family peptidase inhibitor I42; Region: Inhibitor_I42; pfam09394 351605007802 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 351605007803 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 351605007804 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 351605007805 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 351605007806 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 351605007807 putative active site [active] 351605007808 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 351605007809 SseB protein; Region: SseB; cl06279 351605007810 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 351605007811 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 351605007812 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 351605007813 Transposase; Region: DDE_Tnp_ISL3; pfam01610 351605007814 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 351605007815 Homeodomain-like domain; Region: HTH_23; pfam13384 351605007816 Winged helix-turn helix; Region: HTH_29; pfam13551 351605007817 Integrase core domain; Region: rve; pfam00665 351605007818 Integrase core domain; Region: rve_3; cl15866 351605007819 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 351605007820 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 351605007821 active site 1 [active] 351605007822 dimer interface [polypeptide binding]; other site 351605007823 hexamer interface [polypeptide binding]; other site 351605007824 active site 2 [active] 351605007825 RES domain; Region: RES; smart00953 351605007826 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 351605007827 HEPN domain; Region: HEPN; pfam05168 351605007828 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 351605007829 active site 351605007830 NTP binding site [chemical binding]; other site 351605007831 metal binding triad [ion binding]; metal-binding site 351605007832 antibiotic binding site [chemical binding]; other site 351605007833 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 351605007834 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 351605007835 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 351605007836 catalytic residue [active] 351605007837 DNA-sulfur modification-associated; Region: DndB; cl17621 351605007838 DGQHR domain; Region: DGQHR; TIGR03187 351605007839 hypothetical protein; Provisional; Region: PRK06850 351605007840 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 351605007841 Active Sites [active] 351605007842 DNA sulfur modification protein DndD; Region: DNA_S_dndD; TIGR03185 351605007843 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351605007844 Walker A/P-loop; other site 351605007845 ATP binding site [chemical binding]; other site 351605007846 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351605007847 ABC transporter signature motif; other site 351605007848 Walker B; other site 351605007849 D-loop; other site 351605007850 H-loop/switch region; other site 351605007851 Domain of unknown function (DUF1832); Region: DUF1832; pfam08870 351605007852 Homeodomain-like domain; Region: HTH_23; pfam13384 351605007853 Winged helix-turn helix; Region: HTH_29; pfam13551 351605007854 Integrase core domain; Region: rve; pfam00665 351605007855 Integrase core domain; Region: rve_3; cl15866 351605007856 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 351605007857 ATP binding site [chemical binding]; other site 351605007858 Mg2+ binding site [ion binding]; other site 351605007859 G-X-G motif; other site 351605007860 dnd system-associated protein 4; Region: dnd_assoc_4; TIGR04062 351605007861 DNA sulfur modification protein DndD; Region: DNA_S_dndD; TIGR03185 351605007862 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351605007863 Walker A/P-loop; other site 351605007864 ATP binding site [chemical binding]; other site 351605007865 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_a; cd09179 351605007866 PLD-like domain; Region: PLDc_2; pfam13091 351605007867 putative active site [active] 351605007868 catalytic site [active] 351605007869 DNA phosphorothioation system restriction enzyme; Region: dnd_restrict_1; TIGR04095 351605007870 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 351605007871 ATP binding site [chemical binding]; other site 351605007872 putative Mg++ binding site [ion binding]; other site 351605007873 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 351605007874 nucleotide binding region [chemical binding]; other site 351605007875 ATP-binding site [chemical binding]; other site 351605007876 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 351605007877 active site 351605007878 8-oxo-dGMP binding site [chemical binding]; other site 351605007879 nudix motif; other site 351605007880 metal binding site [ion binding]; metal-binding site 351605007881 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 351605007882 HAMP domain; Region: HAMP; pfam00672 351605007883 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 351605007884 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 351605007885 dimer interface [polypeptide binding]; other site 351605007886 putative CheW interface [polypeptide binding]; other site 351605007887 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 351605007888 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 351605007889 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 351605007890 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 351605007891 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 351605007892 N-acetyl-D-glucosamine binding site [chemical binding]; other site 351605007893 catalytic residue [active] 351605007894 L-aspartate oxidase; Provisional; Region: PRK06175 351605007895 L-aspartate oxidase; Provisional; Region: PRK09077 351605007896 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 351605007897 Chorismate mutase type II; Region: CM_2; pfam01817 351605007898 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 351605007899 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 351605007900 putative subunit interface; other site 351605007901 Glutamate synthase domain 1 [Amino acid transport and metabolism]; Region: GltB; COG0067 351605007902 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 351605007903 putative active site [active] 351605007904 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 351605007905 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 351605007906 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 351605007907 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 351605007908 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 351605007909 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 351605007910 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 351605007911 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 351605007912 active site 351605007913 FMN binding site [chemical binding]; other site 351605007914 substrate binding site [chemical binding]; other site 351605007915 3Fe-4S cluster binding site [ion binding]; other site 351605007916 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; pfam01985 351605007917 YXWGXW repeat (2 copies); Region: YXWGXW; pfam12779 351605007918 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 351605007919 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 351605007920 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 351605007921 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 351605007922 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 351605007923 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 351605007924 S-adenosylmethionine binding site [chemical binding]; other site 351605007925 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 351605007926 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 351605007927 active site 351605007928 (T/H)XGH motif; other site 351605007929 aspartate aminotransferase; Provisional; Region: PRK05764 351605007930 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 351605007931 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351605007932 homodimer interface [polypeptide binding]; other site 351605007933 catalytic residue [active] 351605007934 hybrid cluster protein-associated redox disulfide domain; Region: prismane_assoc; TIGR03980 351605007935 GTP-binding protein LepA; Provisional; Region: PRK05433 351605007936 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 351605007937 G1 box; other site 351605007938 putative GEF interaction site [polypeptide binding]; other site 351605007939 GTP/Mg2+ binding site [chemical binding]; other site 351605007940 Switch I region; other site 351605007941 G2 box; other site 351605007942 G3 box; other site 351605007943 Switch II region; other site 351605007944 G4 box; other site 351605007945 G5 box; other site 351605007946 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 351605007947 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 351605007948 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 351605007949 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 351605007950 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 351605007951 Catalytic site [active] 351605007952 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 351605007953 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 351605007954 RNA binding surface [nucleotide binding]; other site 351605007955 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 351605007956 active site 351605007957 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 351605007958 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 351605007959 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 351605007960 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 351605007961 active site 351605007962 PHP Thumb interface [polypeptide binding]; other site 351605007963 metal binding site [ion binding]; metal-binding site 351605007964 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 351605007965 generic binding surface II; other site 351605007966 generic binding surface I; other site 351605007967 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 351605007968 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 351605007969 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 351605007970 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 351605007971 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 351605007972 active site 351605007973 radical SAM protein, TatD family-associated; Region: tatD_link_rSAM; TIGR04038 351605007974 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 351605007975 FeS/SAM binding site; other site 351605007976 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 351605007977 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 351605007978 non-heme iron binding site [ion binding]; other site 351605007979 dimer interface [polypeptide binding]; other site 351605007980 Superoxide reductase-like (SORL) domain, class I; SORL-domains are present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals...; Region: SORL_Dfx_classI; cd03171 351605007981 non-heme iron binding site [ion binding]; other site 351605007982 dimer interface [polypeptide binding]; other site 351605007983 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 351605007984 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 351605007985 Major Facilitator Superfamily; Region: MFS_1; pfam07690 351605007986 putative substrate translocation pore; other site 351605007987 Muconolactone delta-isomerase; Region: MIase; cl01992 351605007988 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 351605007989 Uncharacterized conserved protein [Function unknown]; Region: COG2006 351605007990 Domain of unknown function (DUF362); Region: DUF362; pfam04015 351605007991 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; pfam01977 351605007992 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 351605007993 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 351605007994 Xylose isomerase [Carbohydrate transport and metabolism]; Region: XylA; cl09945 351605007995 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 351605007996 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 351605007997 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 351605007998 acyl-activating enzyme (AAE) consensus motif; other site 351605007999 AMP binding site [chemical binding]; other site 351605008000 active site 351605008001 CoA binding site [chemical binding]; other site 351605008002 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 351605008003 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 351605008004 Metal-binding active site; metal-binding site 351605008005 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 351605008006 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 351605008007 3-oxoacyl-(acyl carrier protein) synthase II; Provisional; Region: PRK14691 351605008008 active site 351605008009 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 351605008010 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 351605008011 dimer interface [polypeptide binding]; other site 351605008012 active site 351605008013 tryptophan synthase subunit beta; Reviewed; Region: PRK12391 351605008014 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 351605008015 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 351605008016 catalytic residue [active] 351605008017 Myo-inositol-1-phosphate synthase [Lipid metabolism]; Region: INO1; COG1260 351605008018 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; pfam07994 351605008019 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 351605008020 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 351605008021 NAD(P) binding site [chemical binding]; other site 351605008022 tryptophan synthase subunit beta; Reviewed; Region: PRK12391 351605008023 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 351605008024 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 351605008025 catalytic residue [active] 351605008026 Uncharacterized ArCR, COG2043; Region: DUF169; pfam02596 351605008027 Transcriptional regulators [Transcription]; Region: MarR; COG1846 351605008028 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 351605008029 Homeodomain-like domain; Region: HTH_23; pfam13384 351605008030 Winged helix-turn helix; Region: HTH_29; pfam13551 351605008031 Integrase core domain; Region: rve; pfam00665 351605008032 Integrase core domain; Region: rve_3; cl15866 351605008033 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 351605008034 Major Facilitator Superfamily; Region: MFS_1; pfam07690 351605008035 putative substrate translocation pore; other site 351605008036 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 351605008037 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 351605008038 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 351605008039 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 351605008040 active site residue [active] 351605008041 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 351605008042 active site residue [active] 351605008043 Transcriptional regulator [Transcription]; Region: LysR; COG0583 351605008044 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 351605008045 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 351605008046 putative dimerization interface [polypeptide binding]; other site 351605008047 RF-1 domain; Region: RF-1; pfam00472 351605008048 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 351605008049 Zn2+ binding site [ion binding]; other site 351605008050 Mg2+ binding site [ion binding]; other site 351605008051 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 351605008052 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605008053 active site 351605008054 phosphorylation site [posttranslational modification] 351605008055 intermolecular recognition site; other site 351605008056 dimerization interface [polypeptide binding]; other site 351605008057 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 351605008058 PAS fold; Region: PAS_3; pfam08447 351605008059 putative active site [active] 351605008060 heme pocket [chemical binding]; other site 351605008061 PAS domain; Region: PAS_9; pfam13426 351605008062 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 351605008063 putative active site [active] 351605008064 heme pocket [chemical binding]; other site 351605008065 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 351605008066 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 351605008067 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 351605008068 AAA domain; Region: AAA_26; pfam13500 351605008069 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 351605008070 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 351605008071 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 351605008072 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 351605008073 Soluble P-type ATPase [General function prediction only]; Region: COG4087 351605008074 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 351605008075 PHP family phosphoesterase with a Zn ribbon [General function prediction only]; Region: COG1379 351605008076 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 351605008077 PHP-associated; Region: PHP_C; pfam13263 351605008078 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 351605008079 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 351605008080 dimerization domain [polypeptide binding]; other site 351605008081 dimer interface [polypeptide binding]; other site 351605008082 catalytic residues [active] 351605008083 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 351605008084 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 351605008085 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351605008086 Walker A/P-loop; other site 351605008087 ATP binding site [chemical binding]; other site 351605008088 Q-loop/lid; other site 351605008089 ABC transporter signature motif; other site 351605008090 Walker B; other site 351605008091 D-loop; other site 351605008092 H-loop/switch region; other site 351605008093 Radical SAM superfamily; Region: Radical_SAM; pfam04055 351605008094 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 351605008095 FeS/SAM binding site; other site 351605008096 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 351605008097 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 351605008098 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 351605008099 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 351605008100 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 351605008101 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 351605008102 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 351605008103 Cadherin repeat-like domain; Region: CA_like; cl15786 351605008104 Ca2+ binding site [ion binding]; other site 351605008105 Cadherin repeat-like domain; Region: CA_like; cl15786 351605008106 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 351605008107 Ca2+ binding site [ion binding]; other site 351605008108 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 351605008109 Cadherin repeat-like domain; Region: CA_like; cl15786 351605008110 Ca2+ binding site [ion binding]; other site 351605008111 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 351605008112 Cadherin repeat-like domain; Region: CA_like; cl15786 351605008113 Ca2+ binding site [ion binding]; other site 351605008114 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 351605008115 Cadherin repeat-like domain; Region: CA_like; cl15786 351605008116 Ca2+ binding site [ion binding]; other site 351605008117 VCBS repeat; Region: VCBS_repeat; TIGR01965 351605008118 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 351605008119 Cadherin repeat-like domain; Region: CA_like; cl15786 351605008120 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 351605008121 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 351605008122 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 351605008123 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 351605008124 HlyD family secretion protein; Region: HlyD_3; pfam13437 351605008125 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 351605008126 Transposase, Mutator family; Region: Transposase_mut; pfam00872 351605008127 MULE transposase domain; Region: MULE; pfam10551 351605008128 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 351605008129 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605008130 active site 351605008131 phosphorylation site [posttranslational modification] 351605008132 intermolecular recognition site; other site 351605008133 dimerization interface [polypeptide binding]; other site 351605008134 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 351605008135 DNA binding site [nucleotide binding] 351605008136 PBP superfamily domain; Region: PBP_like_2; cl17296 351605008137 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 351605008138 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 351605008139 ABC-ATPase subunit interface; other site 351605008140 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 351605008141 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 351605008142 dimer interface [polypeptide binding]; other site 351605008143 conserved gate region; other site 351605008144 putative PBP binding loops; other site 351605008145 ABC-ATPase subunit interface; other site 351605008146 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14256 351605008147 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 351605008148 Walker A/P-loop; other site 351605008149 ATP binding site [chemical binding]; other site 351605008150 Q-loop/lid; other site 351605008151 ABC transporter signature motif; other site 351605008152 Walker B; other site 351605008153 D-loop; other site 351605008154 H-loop/switch region; other site 351605008155 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 351605008156 PhoU domain; Region: PhoU; pfam01895 351605008157 PhoU domain; Region: PhoU; pfam01895 351605008158 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 351605008159 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 351605008160 catalytic core [active] 351605008161 DNA repair and recombination protein RadA; Validated; Region: radA; PRK04301 351605008162 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 351605008163 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 351605008164 TMP-binding site; other site 351605008165 ATP-binding site [chemical binding]; other site 351605008166 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 351605008167 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 351605008168 TMP-binding site; other site 351605008169 ATP-binding site [chemical binding]; other site 351605008170 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 351605008171 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 351605008172 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 351605008173 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 351605008174 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 351605008175 Zn2+ binding site [ion binding]; other site 351605008176 Mg2+ binding site [ion binding]; other site 351605008177 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 351605008178 GH3 auxin-responsive promoter; Region: GH3; pfam03321 351605008179 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 351605008180 PBP superfamily domain; Region: PBP_like_2; cl17296 351605008181 exopolysaccharide/PEP-CTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 351605008182 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 351605008183 Chain length determinant protein; Region: Wzz; cl15801 351605008184 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 351605008185 uncharacterized protein, PEP-CTERM system associated; Region: pepcterm_hypo_1; TIGR03016 351605008186 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 351605008187 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 351605008188 SLBB domain; Region: SLBB; pfam10531 351605008189 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 351605008190 binding surface 351605008191 TPR motif; other site 351605008192 TPR repeat; Region: TPR_11; pfam13414 351605008193 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 351605008194 binding surface 351605008195 TPR motif; other site 351605008196 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 351605008197 binding surface 351605008198 TPR motif; other site 351605008199 Tetratricopeptide repeat; Region: TPR_16; pfam13432 351605008200 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 351605008201 TPR motif; other site 351605008202 binding surface 351605008203 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 351605008204 binding surface 351605008205 TPR motif; other site 351605008206 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 351605008207 binding surface 351605008208 TPR motif; other site 351605008209 Tetratricopeptide repeat; Region: TPR_12; pfam13424 351605008210 TPR repeat; Region: TPR_11; pfam13414 351605008211 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 351605008212 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 351605008213 Mg++ binding site [ion binding]; other site 351605008214 putative catalytic motif [active] 351605008215 substrate binding site [chemical binding]; other site 351605008216 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 351605008217 exosortase D, VPLPA-CTERM-specific; Region: exosort_VPLPA; TIGR04152 351605008218 Protein of unknown function (DUF3485); Region: DUF3485; pfam11984 351605008219 SynChlorMet cassette radical SAM/SPASM protein ScmE; Region: SCM_rSAM_ScmE; TIGR04250 351605008220 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 351605008221 FeS/SAM binding site; other site 351605008222 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 351605008223 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 351605008224 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_6; cd04955 351605008225 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 351605008226 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 351605008227 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 351605008228 Beta-N-acetylhexosaminidases of glycosyl hydrolase family 20 (GH20) catalyze the removal of beta-1,4-linked N-acetyl-D-hexosamine residues from the non-reducing ends of N-acetyl-beta-D-hexosaminides including N-acetylglucosides and N-acetylgalactosides; Region: GH20_hexosaminidase; cl02948 351605008229 active site 351605008230 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 351605008231 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 351605008232 Methyltransferase domain; Region: Methyltransf_23; pfam13489 351605008233 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 351605008234 S-adenosylmethionine binding site [chemical binding]; other site 351605008235 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 351605008236 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 351605008237 Probable Catalytic site; other site 351605008238 metal-binding site 351605008239 O-Antigen ligase; Region: Wzy_C; cl04850 351605008240 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 351605008241 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 351605008242 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 351605008243 trimer interface [polypeptide binding]; other site 351605008244 active site 351605008245 substrate binding site [chemical binding]; other site 351605008246 CoA binding site [chemical binding]; other site 351605008247 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cl00630 351605008248 putative active site [active] 351605008249 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 351605008250 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 351605008251 putative NAD(P) binding site [chemical binding]; other site 351605008252 active site 351605008253 putative substrate binding site [chemical binding]; other site 351605008254 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 351605008255 active site 351605008256 catalytic residues [active] 351605008257 Domain of unknown function DUF11; Region: DUF11; pfam01345 351605008258 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 351605008259 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 351605008260 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 351605008261 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 351605008262 SAP domain; Region: SAP; cl02640 351605008263 exosortase H, IPTLxxWG-CTERM-specific; Region: exosort_XrtH; TIGR04177 351605008264 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; pfam09721 351605008265 SurA N-terminal domain; Region: SurA_N_3; cl07813 351605008266 nitrogen fixation protein NifM; Region: nifM_nitrog; TIGR02933 351605008267 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 351605008268 Protein of unknown function (DUF3373); Region: DUF3373; pfam11853 351605008269 TonB C terminal; Region: TonB_2; pfam13103 351605008270 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 351605008271 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 351605008272 Domain of unknown function (DUF2341); Region: DUF2341; pfam10102 351605008273 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 351605008274 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 351605008275 filamentous hemagglutinin family N-terminal domain; Region: adhes_NPXG; TIGR01901 351605008276 Filamentous haemagglutinin family outer membrane protein; Region: DUF3739; pfam12545 351605008277 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 351605008278 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 351605008279 Surface antigen; Region: Bac_surface_Ag; pfam01103 351605008280 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 351605008281 Transposase; Region: DDE_Tnp_ISL3; pfam01610 351605008282 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 351605008283 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 351605008284 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 351605008285 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 351605008286 catalytic residues [active] 351605008287 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 351605008288 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 351605008289 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 351605008290 active site 351605008291 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 351605008292 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 351605008293 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 351605008294 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 351605008295 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 351605008296 DNA binding residues [nucleotide binding] 351605008297 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 351605008298 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 351605008299 S-adenosylmethionine binding site [chemical binding]; other site 351605008300 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 351605008301 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 351605008302 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 351605008303 DNA binding residues [nucleotide binding] 351605008304 dimerization interface [polypeptide binding]; other site 351605008305 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 351605008306 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 351605008307 DNA binding residues [nucleotide binding] 351605008308 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 351605008309 IHF dimer interface [polypeptide binding]; other site 351605008310 IHF - DNA interface [nucleotide binding]; other site 351605008311 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 351605008312 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 351605008313 putative tRNA-binding site [nucleotide binding]; other site 351605008314 B3/4 domain; Region: B3_4; pfam03483 351605008315 tRNA synthetase B5 domain; Region: B5; smart00874 351605008316 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 351605008317 dimer interface [polypeptide binding]; other site 351605008318 motif 1; other site 351605008319 motif 3; other site 351605008320 motif 2; other site 351605008321 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 351605008322 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 351605008323 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 351605008324 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 351605008325 dimer interface [polypeptide binding]; other site 351605008326 motif 1; other site 351605008327 active site 351605008328 motif 2; other site 351605008329 motif 3; other site 351605008330 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 351605008331 23S rRNA binding site [nucleotide binding]; other site 351605008332 L21 binding site [polypeptide binding]; other site 351605008333 L13 binding site [polypeptide binding]; other site 351605008334 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 351605008335 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 351605008336 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 351605008337 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 351605008338 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 351605008339 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 351605008340 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 351605008341 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 351605008342 active site 351605008343 dimer interface [polypeptide binding]; other site 351605008344 motif 1; other site 351605008345 motif 2; other site 351605008346 motif 3; other site 351605008347 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 351605008348 anticodon binding site; other site 351605008349 Uncharacterized conserved protein [Function unknown]; Region: COG4095 351605008350 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 351605008351 Domain of unknown function DUF20; Region: UPF0118; pfam01594 351605008352 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 351605008353 Protein of unknown function (DUF330); Region: DUF330; pfam03886 351605008354 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 351605008355 mce related protein; Region: MCE; pfam02470 351605008356 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 351605008357 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 351605008358 Walker A/P-loop; other site 351605008359 ATP binding site [chemical binding]; other site 351605008360 Q-loop/lid; other site 351605008361 ABC transporter signature motif; other site 351605008362 Walker B; other site 351605008363 D-loop; other site 351605008364 H-loop/switch region; other site 351605008365 Permease; Region: Permease; pfam02405 351605008366 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 351605008367 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 351605008368 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 351605008369 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 351605008370 TMP-binding site; other site 351605008371 ATP-binding site [chemical binding]; other site 351605008372 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 351605008373 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 351605008374 TMP-binding site; other site 351605008375 ATP-binding site [chemical binding]; other site 351605008376 excinuclease ABC subunit C; Provisional; Region: uvrC; PRK14666 351605008377 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 351605008378 catalytic core [active] 351605008379 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 351605008380 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 351605008381 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; cl08354 351605008382 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 351605008383 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 351605008384 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 351605008385 NADH dehydrogenase; Region: NADHdh; cl00469 351605008386 hydrogenase 4 subunit D; Validated; Region: PRK06525 351605008387 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 351605008388 phosphoglucomutase; Validated; Region: PRK07564 351605008389 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 351605008390 active site 351605008391 substrate binding site [chemical binding]; other site 351605008392 metal binding site [ion binding]; metal-binding site 351605008393 pyruvate kinase; Provisional; Region: PRK05826 351605008394 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 351605008395 domain interfaces; other site 351605008396 active site 351605008397 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 351605008398 propionate/acetate kinase; Provisional; Region: PRK12379 351605008399 diphosphate--fructose-6-phosphate 1-phosphotransferase; Provisional; Region: PRK06830 351605008400 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 351605008401 active site 351605008402 ADP/pyrophosphate binding site [chemical binding]; other site 351605008403 dimerization interface [polypeptide binding]; other site 351605008404 allosteric effector site; other site 351605008405 fructose-1,6-bisphosphate binding site; other site 351605008406 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 351605008407 cytosolic glyceraldehyde 3-phosphate dehydrogenase; Provisional; Region: PTZ00434 351605008408 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 351605008409 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 351605008410 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 351605008411 homodimer interface [polypeptide binding]; other site 351605008412 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 351605008413 active site pocket [active] 351605008414 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 351605008415 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 351605008416 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 351605008417 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 351605008418 HlyD family secretion protein; Region: HlyD_3; pfam13437 351605008419 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 351605008420 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 351605008421 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 351605008422 Domain of unknown function (DUF4410); Region: DUF4410; pfam14366 351605008423 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 351605008424 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 351605008425 GAF domain; Region: GAF; pfam01590 351605008426 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 351605008427 Walker A motif; other site 351605008428 ATP binding site [chemical binding]; other site 351605008429 Walker B motif; other site 351605008430 arginine finger; other site 351605008431 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 351605008432 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 351605008433 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 351605008434 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 351605008435 Walker A/P-loop; other site 351605008436 ATP binding site [chemical binding]; other site 351605008437 Q-loop/lid; other site 351605008438 ABC transporter signature motif; other site 351605008439 Walker B; other site 351605008440 D-loop; other site 351605008441 H-loop/switch region; other site 351605008442 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 351605008443 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 351605008444 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605008445 active site 351605008446 phosphorylation site [posttranslational modification] 351605008447 intermolecular recognition site; other site 351605008448 dimerization interface [polypeptide binding]; other site 351605008449 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 351605008450 Walker A motif; other site 351605008451 ATP binding site [chemical binding]; other site 351605008452 Walker B motif; other site 351605008453 arginine finger; other site 351605008454 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 351605008455 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 351605008456 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 351605008457 putative active site [active] 351605008458 heme pocket [chemical binding]; other site 351605008459 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 351605008460 dimer interface [polypeptide binding]; other site 351605008461 phosphorylation site [posttranslational modification] 351605008462 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 351605008463 ATP binding site [chemical binding]; other site 351605008464 Mg2+ binding site [ion binding]; other site 351605008465 G-X-G motif; other site 351605008466 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 351605008467 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 351605008468 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 351605008469 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 351605008470 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 351605008471 Walker A motif; other site 351605008472 ATP binding site [chemical binding]; other site 351605008473 Walker B motif; other site 351605008474 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 351605008475 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 351605008476 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 351605008477 Walker A motif; other site 351605008478 ATP binding site [chemical binding]; other site 351605008479 Walker B motif; other site 351605008480 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 351605008481 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 351605008482 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 351605008483 shikimate binding site; other site 351605008484 NAD(P) binding site [chemical binding]; other site 351605008485 Protein of unknown function (DUF2723); Region: DUF2723; pfam11028 351605008486 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 351605008487 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 351605008488 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 351605008489 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 351605008490 active site 351605008491 Riboflavin kinase; Region: Flavokinase; pfam01687 351605008492 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 351605008493 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 351605008494 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605008495 active site 351605008496 phosphorylation site [posttranslational modification] 351605008497 intermolecular recognition site; other site 351605008498 CheB methylesterase; Region: CheB_methylest; pfam01339 351605008499 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 351605008500 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 351605008501 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 351605008502 S-adenosylmethionine binding site [chemical binding]; other site 351605008503 HEAT repeats; Region: HEAT_2; pfam13646 351605008504 HEAT repeats; Region: HEAT_2; pfam13646 351605008505 PBS lyase HEAT-like repeat; Region: HEAT_PBS; pfam03130 351605008506 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 351605008507 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 351605008508 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 351605008509 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 351605008510 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 351605008511 HAMP domain; Region: HAMP; pfam00672 351605008512 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 351605008513 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 351605008514 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 351605008515 dimer interface [polypeptide binding]; other site 351605008516 putative CheW interface [polypeptide binding]; other site 351605008517 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 351605008518 putative CheA interaction surface; other site 351605008519 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 351605008520 putative binding surface; other site 351605008521 active site 351605008522 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 351605008523 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 351605008524 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 351605008525 ATP binding site [chemical binding]; other site 351605008526 Mg2+ binding site [ion binding]; other site 351605008527 G-X-G motif; other site 351605008528 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 351605008529 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605008530 Response regulator receiver domain; Region: Response_reg; pfam00072 351605008531 active site 351605008532 phosphorylation site [posttranslational modification] 351605008533 intermolecular recognition site; other site 351605008534 dimerization interface [polypeptide binding]; other site 351605008535 Response regulator receiver domain; Region: Response_reg; pfam00072 351605008536 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605008537 active site 351605008538 phosphorylation site [posttranslational modification] 351605008539 intermolecular recognition site; other site 351605008540 dimerization interface [polypeptide binding]; other site 351605008541 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 351605008542 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605008543 active site 351605008544 phosphorylation site [posttranslational modification] 351605008545 intermolecular recognition site; other site 351605008546 dimerization interface [polypeptide binding]; other site 351605008547 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 351605008548 Walker A motif; other site 351605008549 ATP binding site [chemical binding]; other site 351605008550 Walker B motif; other site 351605008551 arginine finger; other site 351605008552 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 351605008553 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 351605008554 PAS domain; Region: PAS; smart00091 351605008555 putative active site [active] 351605008556 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 351605008557 dimer interface [polypeptide binding]; other site 351605008558 phosphorylation site [posttranslational modification] 351605008559 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 351605008560 ATP binding site [chemical binding]; other site 351605008561 Mg2+ binding site [ion binding]; other site 351605008562 G-X-G motif; other site 351605008563 ribonuclease R; Region: RNase_R; TIGR02063 351605008564 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 351605008565 RNB domain; Region: RNB; pfam00773 351605008566 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 351605008567 RNA binding site [nucleotide binding]; other site 351605008568 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 351605008569 TPR motif; other site 351605008570 binding surface 351605008571 Tetratricopeptide repeat; Region: TPR_16; pfam13432 351605008572 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 351605008573 binding surface 351605008574 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 351605008575 TPR motif; other site 351605008576 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 351605008577 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 351605008578 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 351605008579 N-acetyl-D-glucosamine binding site [chemical binding]; other site 351605008580 catalytic residue [active] 351605008581 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 351605008582 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351605008583 Walker A/P-loop; other site 351605008584 ATP binding site [chemical binding]; other site 351605008585 Q-loop/lid; other site 351605008586 ABC transporter signature motif; other site 351605008587 Walker B; other site 351605008588 D-loop; other site 351605008589 H-loop/switch region; other site 351605008590 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 351605008591 MarR family; Region: MarR; pfam01047 351605008592 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 351605008593 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 351605008594 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 351605008595 HlyD family secretion protein; Region: HlyD_3; pfam13437 351605008596 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 351605008597 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 351605008598 putative substrate translocation pore; other site 351605008599 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 351605008600 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 351605008601 GAF domain; Region: GAF; pfam01590 351605008602 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 351605008603 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 351605008604 putative active site [active] 351605008605 heme pocket [chemical binding]; other site 351605008606 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 351605008607 dimer interface [polypeptide binding]; other site 351605008608 phosphorylation site [posttranslational modification] 351605008609 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 351605008610 ATP binding site [chemical binding]; other site 351605008611 Mg2+ binding site [ion binding]; other site 351605008612 G-X-G motif; other site 351605008613 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 351605008614 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605008615 active site 351605008616 phosphorylation site [posttranslational modification] 351605008617 intermolecular recognition site; other site 351605008618 dimerization interface [polypeptide binding]; other site 351605008619 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 351605008620 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605008621 active site 351605008622 phosphorylation site [posttranslational modification] 351605008623 intermolecular recognition site; other site 351605008624 dimerization interface [polypeptide binding]; other site 351605008625 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 351605008626 Walker A motif; other site 351605008627 ATP binding site [chemical binding]; other site 351605008628 Walker B motif; other site 351605008629 arginine finger; other site 351605008630 Response regulator receiver domain; Region: Response_reg; pfam00072 351605008631 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605008632 active site 351605008633 phosphorylation site [posttranslational modification] 351605008634 intermolecular recognition site; other site 351605008635 dimerization interface [polypeptide binding]; other site 351605008636 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 351605008637 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 351605008638 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 351605008639 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 351605008640 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain and a metal-binding domain [Transcription]; Region: NikR; COG0864 351605008641 PemK-like protein; Region: PemK; pfam02452 351605008642 Predicted transcriptional regulator [Transcription]; Region: COG3905 351605008643 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 351605008644 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 351605008645 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 351605008646 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 351605008647 putative active site [active] 351605008648 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 351605008649 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 351605008650 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 351605008651 Putative addiction module component; Region: Unstab_antitox; pfam09720 351605008652 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 351605008653 PAS fold; Region: PAS_4; pfam08448 351605008654 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 351605008655 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 351605008656 ATP binding site [chemical binding]; other site 351605008657 Mg2+ binding site [ion binding]; other site 351605008658 G-X-G motif; other site 351605008659 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 351605008660 active site 351605008661 hydrophilic channel; other site 351605008662 dimerization interface [polypeptide binding]; other site 351605008663 catalytic residues [active] 351605008664 active site lid [active] 351605008665 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14314 351605008666 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 351605008667 active site 351605008668 substrate binding site [chemical binding]; other site 351605008669 metal binding site [ion binding]; metal-binding site 351605008670 YbbR-like protein; Region: YbbR; pfam07949 351605008671 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 351605008672 dihydropteroate synthase; Region: DHPS; TIGR01496 351605008673 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 351605008674 substrate binding pocket [chemical binding]; other site 351605008675 dimer interface [polypeptide binding]; other site 351605008676 inhibitor binding site; inhibition site 351605008677 FtsH Extracellular; Region: FtsH_ext; pfam06480 351605008678 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 351605008679 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 351605008680 Walker A motif; other site 351605008681 ATP binding site [chemical binding]; other site 351605008682 Walker B motif; other site 351605008683 arginine finger; other site 351605008684 Peptidase family M41; Region: Peptidase_M41; pfam01434 351605008685 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 351605008686 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 351605008687 TilS substrate C-terminal domain; Region: TilS_C; smart00977 351605008688 Fic family protein [Function unknown]; Region: COG3177 351605008689 Fic/DOC family; Region: Fic; pfam02661 351605008690 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 351605008691 Divergent AAA domain; Region: AAA_4; pfam04326 351605008692 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 351605008693 Helix-turn-helix domain; Region: HTH_36; pfam13730 351605008694 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 351605008695 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 351605008696 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 351605008697 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 351605008698 DNA methylase; Region: N6_N4_Mtase; pfam01555 351605008699 DNA methylase; Region: N6_N4_Mtase; pfam01555 351605008700 AIPR protein; Region: AIPR; pfam10592 351605008701 TIR domain; Region: TIR_2; pfam13676 351605008702 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 351605008703 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 351605008704 putative active site [active] 351605008705 heme pocket [chemical binding]; other site 351605008706 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 351605008707 putative active site [active] 351605008708 heme pocket [chemical binding]; other site 351605008709 PAS domain S-box; Region: sensory_box; TIGR00229 351605008710 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 351605008711 putative active site [active] 351605008712 heme pocket [chemical binding]; other site 351605008713 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 351605008714 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 351605008715 putative active site [active] 351605008716 heme pocket [chemical binding]; other site 351605008717 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 351605008718 dimer interface [polypeptide binding]; other site 351605008719 phosphorylation site [posttranslational modification] 351605008720 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 351605008721 ATP binding site [chemical binding]; other site 351605008722 Mg2+ binding site [ion binding]; other site 351605008723 G-X-G motif; other site 351605008724 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 351605008725 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605008726 active site 351605008727 phosphorylation site [posttranslational modification] 351605008728 intermolecular recognition site; other site 351605008729 dimerization interface [polypeptide binding]; other site 351605008730 Response regulator receiver domain; Region: Response_reg; pfam00072 351605008731 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605008732 active site 351605008733 phosphorylation site [posttranslational modification] 351605008734 intermolecular recognition site; other site 351605008735 dimerization interface [polypeptide binding]; other site 351605008736 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 351605008737 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 351605008738 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 351605008739 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 351605008740 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 351605008741 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605008742 active site 351605008743 phosphorylation site [posttranslational modification] 351605008744 intermolecular recognition site; other site 351605008745 dimerization interface [polypeptide binding]; other site 351605008746 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 351605008747 Walker A motif; other site 351605008748 ATP binding site [chemical binding]; other site 351605008749 Walker B motif; other site 351605008750 arginine finger; other site 351605008751 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 351605008752 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 351605008753 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 351605008754 dimerization interface [polypeptide binding]; other site 351605008755 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 351605008756 dimer interface [polypeptide binding]; other site 351605008757 phosphorylation site [posttranslational modification] 351605008758 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 351605008759 ATP binding site [chemical binding]; other site 351605008760 Mg2+ binding site [ion binding]; other site 351605008761 G-X-G motif; other site 351605008762 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 351605008763 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 351605008764 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 351605008765 membrane-bound complex binding site; other site 351605008766 hinge residues; other site 351605008767 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 351605008768 Uncharacterized conserved protein [Function unknown]; Region: COG3391 351605008769 NHL repeat; Region: NHL; pfam01436 351605008770 NHL repeat; Region: NHL; pfam01436 351605008771 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 351605008772 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 351605008773 Uncharacterized conserved protein [Function unknown]; Region: COG3391 351605008774 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 351605008775 NHL repeat; Region: NHL; pfam01436 351605008776 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 351605008777 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 351605008778 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 351605008779 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 351605008780 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 351605008781 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 351605008782 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 351605008783 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 351605008784 Walker A/P-loop; other site 351605008785 ATP binding site [chemical binding]; other site 351605008786 Q-loop/lid; other site 351605008787 ABC transporter signature motif; other site 351605008788 Walker B; other site 351605008789 D-loop; other site 351605008790 H-loop/switch region; other site 351605008791 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 351605008792 cobalt transport protein CbiM; Validated; Region: PRK06265 351605008793 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 351605008794 PDGLE domain; Region: PDGLE; pfam13190 351605008795 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 351605008796 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 351605008797 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 351605008798 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 351605008799 Major Facilitator Superfamily; Region: MFS_1; pfam07690 351605008800 putative substrate translocation pore; other site 351605008801 Right handed beta helix region; Region: Beta_helix; pfam13229 351605008802 Putative FMN-binding domain; Region: FMN_bind_2; cl17803 351605008803 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 351605008804 TPR repeat; Region: TPR_11; pfam13414 351605008805 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 351605008806 binding surface 351605008807 TPR motif; other site 351605008808 TPR repeat; Region: TPR_11; pfam13414 351605008809 High-affinity nickel-transport protein; Region: NicO; cl00964 351605008810 High-affinity nickel-transport protein; Region: NicO; cl00964 351605008811 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 351605008812 ResB-like family; Region: ResB; pfam05140 351605008813 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 351605008814 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 351605008815 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 351605008816 Periplasmic copper-binding protein (NosD); Region: NosD; pfam05048 351605008817 Right handed beta helix region; Region: Beta_helix; pfam13229 351605008818 Periplasmic copper-binding protein (NosD); Region: NosD; pfam05048 351605008819 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 351605008820 Protein of unknown function (DUF3341); Region: DUF3341; pfam11821 351605008821 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 351605008822 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 351605008823 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 351605008824 4Fe-4S binding domain; Region: Fer4; cl02805 351605008825 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 351605008826 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 351605008827 molybdopterin cofactor binding site; other site 351605008828 The MopB_CT_PHLH CD includes a group of related uncharacterized putative hydrogenase-like homologs (PHLH) of molybdopterin binding proteins. This CD is of the PHLH region homologous to the conserved molybdopterin-binding C-terminal (MopB_CT) region...; Region: MopB_CT_PHLH; cd02784 351605008829 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 351605008830 heme-binding residues [chemical binding]; other site 351605008831 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 351605008832 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 351605008833 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 351605008834 dimerization interface [polypeptide binding]; other site 351605008835 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 351605008836 dimer interface [polypeptide binding]; other site 351605008837 putative CheW interface [polypeptide binding]; other site 351605008838 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 351605008839 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605008840 active site 351605008841 phosphorylation site [posttranslational modification] 351605008842 intermolecular recognition site; other site 351605008843 dimerization interface [polypeptide binding]; other site 351605008844 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 351605008845 DNA binding residues [nucleotide binding] 351605008846 dimerization interface [polypeptide binding]; other site 351605008847 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 351605008848 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 351605008849 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 351605008850 putative active site [active] 351605008851 heme pocket [chemical binding]; other site 351605008852 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 351605008853 dimer interface [polypeptide binding]; other site 351605008854 phosphorylation site [posttranslational modification] 351605008855 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 351605008856 ATP binding site [chemical binding]; other site 351605008857 Mg2+ binding site [ion binding]; other site 351605008858 G-X-G motif; other site 351605008859 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 351605008860 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605008861 active site 351605008862 phosphorylation site [posttranslational modification] 351605008863 intermolecular recognition site; other site 351605008864 dimerization interface [polypeptide binding]; other site 351605008865 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 351605008866 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605008867 active site 351605008868 phosphorylation site [posttranslational modification] 351605008869 intermolecular recognition site; other site 351605008870 dimerization interface [polypeptide binding]; other site 351605008871 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 351605008872 DNA binding residues [nucleotide binding] 351605008873 dimerization interface [polypeptide binding]; other site 351605008874 PAS domain S-box; Region: sensory_box; TIGR00229 351605008875 PAS domain S-box; Region: sensory_box; TIGR00229 351605008876 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 351605008877 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 351605008878 ATP binding site [chemical binding]; other site 351605008879 Mg2+ binding site [ion binding]; other site 351605008880 G-X-G motif; other site 351605008881 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 351605008882 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 351605008883 DDE superfamily endonuclease; Region: DDE_5; pfam13546 351605008884 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 351605008885 DctM-like transporters; Region: DctM; pfam06808 351605008886 TRAP transporter, DctM subunit; Region: dctM; TIGR00786 351605008887 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 351605008888 NHAD transporter family protein; Provisional; Region: PLN00137 351605008889 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 351605008890 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 351605008891 putative ligand binding site [chemical binding]; other site 351605008892 putative NAD binding site [chemical binding]; other site 351605008893 catalytic site [active] 351605008894 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 351605008895 Carbon starvation protein CstA; Region: CstA; pfam02554 351605008896 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 351605008897 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 351605008898 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605008899 active site 351605008900 phosphorylation site [posttranslational modification] 351605008901 intermolecular recognition site; other site 351605008902 dimerization interface [polypeptide binding]; other site 351605008903 LytTr DNA-binding domain; Region: LytTR; smart00850 351605008904 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 351605008905 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 351605008906 GAF domain; Region: GAF_3; pfam13492 351605008907 Histidine kinase; Region: His_kinase; pfam06580 351605008908 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 351605008909 ATP binding site [chemical binding]; other site 351605008910 Mg2+ binding site [ion binding]; other site 351605008911 G-X-G motif; other site 351605008912 Domain of unknown function (DUF4276); Region: DUF4276; pfam14103 351605008913 Predicted ATPase [General function prediction only]; Region: COG4637 351605008914 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351605008915 Walker A/P-loop; other site 351605008916 ATP binding site [chemical binding]; other site 351605008917 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 351605008918 Q-loop/lid; other site 351605008919 ABC transporter signature motif; other site 351605008920 Walker B; other site 351605008921 D-loop; other site 351605008922 H-loop/switch region; other site 351605008923 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 351605008924 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 351605008925 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 351605008926 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 351605008927 active site 351605008928 dimer interface [polypeptide binding]; other site 351605008929 prolyl-tRNA synthetase; Provisional; Region: PRK09194 351605008930 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 351605008931 dimer interface [polypeptide binding]; other site 351605008932 motif 1; other site 351605008933 active site 351605008934 motif 2; other site 351605008935 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 351605008936 putative deacylase active site [active] 351605008937 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 351605008938 active site 351605008939 motif 3; other site 351605008940 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 351605008941 anticodon binding site; other site 351605008942 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 351605008943 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 351605008944 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 351605008945 glutamate dehydrogenase; Provisional; Region: PRK09414 351605008946 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 351605008947 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 351605008948 NAD(P) binding site [chemical binding]; other site 351605008949 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 351605008950 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 351605008951 S-adenosylmethionine binding site [chemical binding]; other site 351605008952 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 351605008953 dimerization interface [polypeptide binding]; other site 351605008954 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 351605008955 Zn2+ binding site [ion binding]; other site 351605008956 Mg2+ binding site [ion binding]; other site 351605008957 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 351605008958 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 351605008959 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 351605008960 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 351605008961 endonuclease III; Region: ENDO3c; smart00478 351605008962 minor groove reading motif; other site 351605008963 helix-hairpin-helix signature motif; other site 351605008964 substrate binding pocket [chemical binding]; other site 351605008965 active site 351605008966 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 351605008967 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 351605008968 active site 351605008969 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 351605008970 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 351605008971 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 351605008972 active site 351605008973 BON domain; Region: BON; pfam04972 351605008974 NnrU protein; Region: NnrU; cl17713 351605008975 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 351605008976 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 351605008977 MgtC family; Region: MgtC; pfam02308 351605008978 GTPase SAR1 and related small G proteins [General function prediction only]; Region: COG1100 351605008979 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 351605008980 G3 box; other site 351605008981 Switch II region; other site 351605008982 GTP/Mg2+ binding site [chemical binding]; other site 351605008983 G4 box; other site 351605008984 G5 box; other site 351605008985 Sporulation related domain; Region: SPOR; pfam05036 351605008986 Sporulation related domain; Region: SPOR; pfam05036 351605008987 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 351605008988 elongation factor G; Reviewed; Region: PRK12740 351605008989 G1 box; other site 351605008990 GTP/Mg2+ binding site [chemical binding]; other site 351605008991 G2 box; other site 351605008992 Switch I region; other site 351605008993 G3 box; other site 351605008994 Switch II region; other site 351605008995 G4 box; other site 351605008996 G5 box; other site 351605008997 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 351605008998 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 351605008999 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 351605009000 pantothenate kinase; Reviewed; Region: PRK13321 351605009001 Biotin operon repressor [Transcription]; Region: BirA; COG1654 351605009002 birA, biotin-[acetyl-CoA-carboxylase] ligase region; Region: birA_ligase; TIGR00121 351605009003 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 351605009004 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 351605009005 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 351605009006 dimerization interface [polypeptide binding]; other site 351605009007 active site 351605009008 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 351605009009 dimerization interface [polypeptide binding]; other site 351605009010 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351605009011 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351605009012 metal binding site [ion binding]; metal-binding site 351605009013 active site 351605009014 I-site; other site 351605009015 rod shape-determining protein MreC; Provisional; Region: PRK13922 351605009016 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 351605009017 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 351605009018 heme-binding residues [chemical binding]; other site 351605009019 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 351605009020 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 351605009021 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 351605009022 AMIN domain; Region: AMIN; pfam11741 351605009023 AMIN domain; Region: AMIN; pfam11741 351605009024 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 351605009025 nucleotide binding site [chemical binding]; other site 351605009026 Gas vesicle protein; Region: Gas_vesicle; pfam00741 351605009027 Gas vesicle synthesis protein GvpL/GvpF; Region: GvpL_GvpF; pfam06386 351605009028 Gas vesicle protein K; Region: GvpK; pfam05121 351605009029 Gas vesicle protein; Region: Gas_vesicle; pfam00741 351605009030 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 351605009031 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 351605009032 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 351605009033 P loop; other site 351605009034 Nucleotide binding site [chemical binding]; other site 351605009035 DTAP/Switch II; other site 351605009036 Switch I; other site 351605009037 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 351605009038 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 351605009039 Nucleotide binding site [chemical binding]; other site 351605009040 DTAP/Switch II; other site 351605009041 Switch I; other site 351605009042 Gas vesicle synthesis protein GvpO; Region: GvpO; pfam05800 351605009043 Gas vesicle protein G; Region: GvpG; pfam05120 351605009044 Gas vesicle synthesis protein GvpL/GvpF; Region: GvpL_GvpF; pfam06386 351605009045 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 351605009046 HSP70 interaction site [polypeptide binding]; other site 351605009047 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 351605009048 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 351605009049 putative dimer interface [polypeptide binding]; other site 351605009050 Gas vesicle synthesis protein GvpL/GvpF; Region: GvpL_GvpF; pfam06386 351605009051 gas vesicle protein GvpN; Region: gas_vesic_GvpN; TIGR02640 351605009052 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 351605009053 Walker A motif; other site 351605009054 ATP binding site [chemical binding]; other site 351605009055 Walker B motif; other site 351605009056 arginine finger; other site 351605009057 gas vesicle synthesis protein GvpA; Provisional; Region: PRK09371 351605009058 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 351605009059 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605009060 active site 351605009061 phosphorylation site [posttranslational modification] 351605009062 intermolecular recognition site; other site 351605009063 dimerization interface [polypeptide binding]; other site 351605009064 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 351605009065 Walker A motif; other site 351605009066 ATP binding site [chemical binding]; other site 351605009067 Walker B motif; other site 351605009068 arginine finger; other site 351605009069 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 351605009070 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 351605009071 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 351605009072 dimer interface [polypeptide binding]; other site 351605009073 phosphorylation site [posttranslational modification] 351605009074 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 351605009075 ATP binding site [chemical binding]; other site 351605009076 Mg2+ binding site [ion binding]; other site 351605009077 G-X-G motif; other site 351605009078 AAA family ATPase, CDC48 subfamily; Region: CDC48; TIGR01243 351605009079 Cell division protein 48 (CDC48), N-terminal domain; Region: CDC48_N; pfam02359 351605009080 Cell division protein 48 (CDC48) domain 2; Region: CDC48_2; smart01072 351605009081 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 351605009082 Walker B motif; other site 351605009083 arginine finger; other site 351605009084 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 351605009085 Walker A motif; other site 351605009086 ATP binding site [chemical binding]; other site 351605009087 Walker B motif; other site 351605009088 arginine finger; other site 351605009089 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 351605009090 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 351605009091 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 351605009092 dimerization interface [polypeptide binding]; other site 351605009093 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 351605009094 dimer interface [polypeptide binding]; other site 351605009095 putative CheW interface [polypeptide binding]; other site 351605009096 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 351605009097 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 351605009098 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 351605009099 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 351605009100 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 351605009101 motif II; other site 351605009102 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 351605009103 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 351605009104 active site 351605009105 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 351605009106 RNA/DNA hybrid binding site [nucleotide binding]; other site 351605009107 active site 351605009108 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 351605009109 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 351605009110 putative acyl-acceptor binding pocket; other site 351605009111 PAS domain; Region: PAS_9; pfam13426 351605009112 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 351605009113 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 351605009114 putative active site [active] 351605009115 heme pocket [chemical binding]; other site 351605009116 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 351605009117 dimer interface [polypeptide binding]; other site 351605009118 phosphorylation site [posttranslational modification] 351605009119 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 351605009120 ATP binding site [chemical binding]; other site 351605009121 Mg2+ binding site [ion binding]; other site 351605009122 G-X-G motif; other site 351605009123 AmmeMemoRadiSam system radical SAM enzyme; Region: AmmeMemoSam_rS; TIGR04337 351605009124 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 351605009125 FeS/SAM binding site; other site 351605009126 Domain of unknown function (DUF3524); Region: DUF3524; pfam12038 351605009127 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 351605009128 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 351605009129 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 351605009130 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 351605009131 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 351605009132 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 351605009133 rod shape-determining protein MreC; Provisional; Region: PRK13922 351605009134 rod shape-determining protein MreC; Region: MreC; pfam04085 351605009135 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 351605009136 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 351605009137 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 351605009138 tetramer interface; other site 351605009139 substrate binding site; other site 351605009140 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 351605009141 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 351605009142 active site 351605009143 motif I; other site 351605009144 motif II; other site 351605009145 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 351605009146 dimer interface [polypeptide binding]; other site 351605009147 active site 351605009148 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 351605009149 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 351605009150 Probable Catalytic site; other site 351605009151 metal-binding site 351605009152 rod shape-determining protein MreB; Provisional; Region: PRK13927 351605009153 MreB and similar proteins; Region: MreB_like; cd10225 351605009154 nucleotide binding site [chemical binding]; other site 351605009155 Mg binding site [ion binding]; other site 351605009156 putative protofilament interaction site [polypeptide binding]; other site 351605009157 RodZ interaction site [polypeptide binding]; other site 351605009158 SurA N-terminal domain; Region: SurA_N_3; pfam13624 351605009159 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 351605009160 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 351605009161 ATP binding site [chemical binding]; other site 351605009162 active site 351605009163 substrate binding site [chemical binding]; other site 351605009164 integron integrase; Region: integrase_gron; TIGR02249 351605009165 IntI (E2) integrases, site-specific tyrosine recombinases, DNA breaking-rejoining enzymes, N- and C-terminal domains. This CD includes integrases which are components of multiresistant integrons and mediate recombination between a proximal attI site and...; Region: INT_IntI; cd01193 351605009166 Int/Topo IB signature motif; other site 351605009167 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 351605009168 Putative transposase; Region: Y2_Tnp; pfam04986 351605009169 integron integrase; Region: integrase_gron; TIGR02249 351605009170 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 351605009171 active site 351605009172 DNA binding site [nucleotide binding] 351605009173 Int/Topo IB signature motif; other site 351605009174 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 351605009175 Putative transposase; Region: Y2_Tnp; pfam04986 351605009176 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 351605009177 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 351605009178 Walker A motif; other site 351605009179 ATP binding site [chemical binding]; other site 351605009180 Walker B motif; other site 351605009181 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 351605009182 Integrase core domain; Region: rve; pfam00665 351605009183 Putative transposase; Region: Y2_Tnp; pfam04986 351605009184 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 351605009185 Transposase; Region: DDE_Tnp_ISL3; pfam01610 351605009186 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 351605009187 Protein of unknown function (DUF2569); Region: DUF2569; pfam10754 351605009188 Competence protein CoiA-like family; Region: CoiA; cl11541 351605009189 Transposase, Mutator family; Region: Transposase_mut; pfam00872 351605009190 MULE transposase domain; Region: MULE; pfam10551 351605009191 Transposase IS200 like; Region: Y1_Tnp; cl00848 351605009192 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 351605009193 Transposase IS200 like; Region: Y1_Tnp; cl00848 351605009194 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 351605009195 Alkaline phosphatase homologues; Region: alkPPc; smart00098 351605009196 active site 351605009197 dimer interface [polypeptide binding]; other site 351605009198 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 351605009199 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 351605009200 active site 351605009201 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 351605009202 Protein of unknown function (DUF3047); Region: DUF3047; pfam11249 351605009203 YtxH-like protein; Region: YtxH; pfam12732 351605009204 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 351605009205 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 351605009206 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 351605009207 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 351605009208 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 351605009209 NAD(P) binding site [chemical binding]; other site 351605009210 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 351605009211 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 351605009212 CoA binding domain; Region: CoA_binding_2; pfam13380 351605009213 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 351605009214 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 351605009215 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 351605009216 E3 interaction surface; other site 351605009217 lipoyl attachment site [posttranslational modification]; other site 351605009218 e3 binding domain; Region: E3_binding; pfam02817 351605009219 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 351605009220 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 351605009221 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 351605009222 alpha subunit interface [polypeptide binding]; other site 351605009223 TPP binding site [chemical binding]; other site 351605009224 heterodimer interface [polypeptide binding]; other site 351605009225 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 351605009226 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 351605009227 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 351605009228 TPP-binding site [chemical binding]; other site 351605009229 tetramer interface [polypeptide binding]; other site 351605009230 heterodimer interface [polypeptide binding]; other site 351605009231 phosphorylation loop region [posttranslational modification] 351605009232 Putative hydrophobic ligand-binding SRPBCC domain of the Hsp90 co-chaperone Aha1 and related proteins; Region: SRPBCC_Aha1; cd08892 351605009233 putative hydrophobic ligand binding site [chemical binding]; other site 351605009234 putative Hsp90 binding residues [polypeptide binding]; other site 351605009235 PAS domain; Region: PAS_9; pfam13426 351605009236 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 351605009237 putative active site [active] 351605009238 heme pocket [chemical binding]; other site 351605009239 TPR repeat; Region: TPR_11; pfam13414 351605009240 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 351605009241 binding surface 351605009242 TPR motif; other site 351605009243 TPR repeat; Region: TPR_11; pfam13414 351605009244 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 351605009245 binding surface 351605009246 TPR motif; other site 351605009247 TPR repeat; Region: TPR_11; pfam13414 351605009248 TPR repeat; Region: TPR_11; pfam13414 351605009249 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 351605009250 binding surface 351605009251 TPR motif; other site 351605009252 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 351605009253 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 351605009254 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 351605009255 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 351605009256 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 351605009257 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 351605009258 LemA family; Region: LemA; cl00742 351605009259 pyruvate carboxylase; Reviewed; Region: PRK12999 351605009260 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 351605009261 ATP-grasp domain; Region: ATP-grasp_4; cl17255 351605009262 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 351605009263 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 351605009264 active site 351605009265 catalytic residues [active] 351605009266 metal binding site [ion binding]; metal-binding site 351605009267 homodimer binding site [polypeptide binding]; other site 351605009268 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 351605009269 carboxyltransferase (CT) interaction site; other site 351605009270 biotinylation site [posttranslational modification]; other site 351605009271 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 351605009272 SurA N-terminal domain; Region: SurA_N; pfam09312 351605009273 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 351605009274 Protein of unknown function (DUF1450); Region: DUF1450; cl11488 351605009275 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 351605009276 Ferritin-like domain; Region: Ferritin; pfam00210 351605009277 ferroxidase diiron center [ion binding]; other site 351605009278 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 351605009279 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 351605009280 active site 351605009281 PHP-associated; Region: PHP_C; pfam13263 351605009282 Phosphotransferase enzyme family; Region: APH; pfam01636 351605009283 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 351605009284 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 351605009285 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 351605009286 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 351605009287 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 351605009288 dimer interface [polypeptide binding]; other site 351605009289 active site residues [active] 351605009290 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 351605009291 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 351605009292 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605009293 active site 351605009294 phosphorylation site [posttranslational modification] 351605009295 intermolecular recognition site; other site 351605009296 dimerization interface [polypeptide binding]; other site 351605009297 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 351605009298 Walker A motif; other site 351605009299 ATP binding site [chemical binding]; other site 351605009300 Walker B motif; other site 351605009301 arginine finger; other site 351605009302 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 351605009303 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cd00138 351605009304 putative active site [active] 351605009305 catalytic site [active] 351605009306 Domain of unknown function (DUF4062); Region: DUF4062; pfam13271 351605009307 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 351605009308 Divergent AAA domain; Region: AAA_4; pfam04326 351605009309 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 351605009310 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 351605009311 CoenzymeA binding site [chemical binding]; other site 351605009312 subunit interaction site [polypeptide binding]; other site 351605009313 PHB binding site; other site 351605009314 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 351605009315 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 351605009316 putative active site [active] 351605009317 putative NTP binding site [chemical binding]; other site 351605009318 putative nucleic acid binding site [nucleotide binding]; other site 351605009319 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 351605009320 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 351605009321 Fe-S cluster binding site [ion binding]; other site 351605009322 active site 351605009323 Zinc dependent phospholipase C; Region: Zn_dep_PLPC; pfam00882 351605009324 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 351605009325 Flavoprotein; Region: Flavoprotein; pfam02441 351605009326 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 351605009327 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 351605009328 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 351605009329 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 351605009330 generic binding surface II; other site 351605009331 generic binding surface I; other site 351605009332 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 351605009333 Zn2+ binding site [ion binding]; other site 351605009334 Mg2+ binding site [ion binding]; other site 351605009335 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 351605009336 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 351605009337 Response regulator receiver domain; Region: Response_reg; pfam00072 351605009338 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605009339 active site 351605009340 phosphorylation site [posttranslational modification] 351605009341 intermolecular recognition site; other site 351605009342 dimerization interface [polypeptide binding]; other site 351605009343 Response regulator receiver domain; Region: Response_reg; pfam00072 351605009344 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605009345 active site 351605009346 phosphorylation site [posttranslational modification] 351605009347 intermolecular recognition site; other site 351605009348 dimerization interface [polypeptide binding]; other site 351605009349 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 351605009350 dimer interface [polypeptide binding]; other site 351605009351 phosphorylation site [posttranslational modification] 351605009352 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 351605009353 ATP binding site [chemical binding]; other site 351605009354 Mg2+ binding site [ion binding]; other site 351605009355 G-X-G motif; other site 351605009356 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 351605009357 Ligand Binding Site [chemical binding]; other site 351605009358 Response regulator receiver domain; Region: Response_reg; pfam00072 351605009359 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605009360 active site 351605009361 phosphorylation site [posttranslational modification] 351605009362 intermolecular recognition site; other site 351605009363 dimerization interface [polypeptide binding]; other site 351605009364 GAF domain; Region: GAF_2; pfam13185 351605009365 GAF domain; Region: GAF; pfam01590 351605009366 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 351605009367 non-specific DNA binding site [nucleotide binding]; other site 351605009368 salt bridge; other site 351605009369 sequence-specific DNA binding site [nucleotide binding]; other site 351605009370 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 351605009371 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 351605009372 binding surface 351605009373 TPR motif; other site 351605009374 TPR repeat; Region: TPR_11; pfam13414 351605009375 Tetratricopeptide repeat; Region: TPR_12; pfam13424 351605009376 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 351605009377 binding surface 351605009378 TPR motif; other site 351605009379 Ribokinase-like subgroup C. Found only in bacteria, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_C; cd01946 351605009380 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 351605009381 substrate binding site [chemical binding]; other site 351605009382 ATP binding site [chemical binding]; other site 351605009383 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 351605009384 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 351605009385 RNA binding site [nucleotide binding]; other site 351605009386 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 351605009387 RNA binding site [nucleotide binding]; other site 351605009388 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 351605009389 RNA binding site [nucleotide binding]; other site 351605009390 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 351605009391 RNA binding site [nucleotide binding]; other site 351605009392 Predicted RNA-binding protein, contains THUMP domain [General function prediction only]; Region: COG1818 351605009393 THUMP domain, predicted to bind RNA; Region: THUMP; cl12076 351605009394 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 351605009395 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 351605009396 RNA binding surface [nucleotide binding]; other site 351605009397 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 351605009398 active site 351605009399 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 351605009400 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]; Region: COG5236 351605009401 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 351605009402 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 351605009403 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351605009404 Walker A/P-loop; other site 351605009405 ATP binding site [chemical binding]; other site 351605009406 Q-loop/lid; other site 351605009407 ABC transporter signature motif; other site 351605009408 Walker B; other site 351605009409 D-loop; other site 351605009410 H-loop/switch region; other site 351605009411 ABC transporter; Region: ABC_tran_2; pfam12848 351605009412 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 351605009413 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 351605009414 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 351605009415 putative active site [active] 351605009416 putative metal binding site [ion binding]; other site 351605009417 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 351605009418 Roadblock/LC7 domain; Region: Robl_LC7; smart00960 351605009419 Roadblock/LC7 domain; Region: Robl_LC7; smart00960 351605009420 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 351605009421 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 351605009422 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 351605009423 Protein of unknown function (DUF3619); Region: DUF3619; pfam12279 351605009424 RNA polymerase factor sigma-70; Validated; Region: PRK09047 351605009425 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 351605009426 DNA binding residues [nucleotide binding] 351605009427 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 351605009428 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 351605009429 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 351605009430 putative dimer interface [polypeptide binding]; other site 351605009431 putative anticodon binding site; other site 351605009432 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 351605009433 homodimer interface [polypeptide binding]; other site 351605009434 motif 1; other site 351605009435 motif 2; other site 351605009436 active site 351605009437 motif 3; other site 351605009438 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 351605009439 protein binding site [polypeptide binding]; other site 351605009440 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 351605009441 catalytic residues [active] 351605009442 hopanoid biosynthesis associated protein HpnK and similar proteins; Region: YdjC_HpnK_like; cd10804 351605009443 putative active site [active] 351605009444 YdjC motif; other site 351605009445 Mg binding site [ion binding]; other site 351605009446 putative homodimer interface [polypeptide binding]; other site 351605009447 hopanoid biosynthesis associated radical SAM protein HpnJ; Region: HpnJ; TIGR03471 351605009448 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 351605009449 B12 binding site [chemical binding]; other site 351605009450 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 351605009451 FeS/SAM binding site; other site 351605009452 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 351605009453 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 351605009454 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 351605009455 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 351605009456 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 351605009457 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 351605009458 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 351605009459 dimerization domain swap beta strand [polypeptide binding]; other site 351605009460 regulatory protein interface [polypeptide binding]; other site 351605009461 active site 351605009462 regulatory phosphorylation site [posttranslational modification]; other site 351605009463 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 351605009464 active pocket/dimerization site; other site 351605009465 active site 351605009466 phosphorylation site [posttranslational modification] 351605009467 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 351605009468 AAA domain; Region: AAA_33; pfam13671 351605009469 HPr kinase/phosphorylase; Provisional; Region: PRK05428 351605009470 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 351605009471 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 351605009472 Hpr binding site; other site 351605009473 active site 351605009474 homohexamer subunit interaction site [polypeptide binding]; other site 351605009475 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 351605009476 active site 351605009477 phosphorylation site [posttranslational modification] 351605009478 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 351605009479 30S subunit binding site; other site 351605009480 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 351605009481 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 351605009482 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 351605009483 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 351605009484 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 351605009485 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 351605009486 Walker A/P-loop; other site 351605009487 ATP binding site [chemical binding]; other site 351605009488 Q-loop/lid; other site 351605009489 ABC transporter signature motif; other site 351605009490 Walker B; other site 351605009491 D-loop; other site 351605009492 H-loop/switch region; other site 351605009493 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 351605009494 OstA-like protein; Region: OstA; pfam03968 351605009495 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 351605009496 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 351605009497 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 351605009498 active site 351605009499 motif I; other site 351605009500 motif II; other site 351605009501 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 351605009502 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 351605009503 putative active site [active] 351605009504 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 351605009505 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 351605009506 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 351605009507 CTP synthetase; Validated; Region: pyrG; PRK05380 351605009508 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 351605009509 Catalytic site [active] 351605009510 active site 351605009511 UTP binding site [chemical binding]; other site 351605009512 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 351605009513 active site 351605009514 putative oxyanion hole; other site 351605009515 catalytic triad [active] 351605009516 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 351605009517 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 351605009518 Ligand binding site; other site 351605009519 oligomer interface; other site 351605009520 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 351605009521 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 351605009522 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 351605009523 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605009524 active site 351605009525 phosphorylation site [posttranslational modification] 351605009526 intermolecular recognition site; other site 351605009527 dimerization interface [polypeptide binding]; other site 351605009528 CheB methylesterase; Region: CheB_methylest; pfam01339 351605009529 CheD chemotactic sensory transduction; Region: CheD; pfam03975 351605009530 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 351605009531 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 351605009532 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 351605009533 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 351605009534 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 351605009535 dimerization interface [polypeptide binding]; other site 351605009536 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 351605009537 dimer interface [polypeptide binding]; other site 351605009538 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 351605009539 putative CheW interface [polypeptide binding]; other site 351605009540 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 351605009541 putative CheA interaction surface; other site 351605009542 Response regulator receiver domain; Region: Response_reg; pfam00072 351605009543 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605009544 active site 351605009545 phosphorylation site [posttranslational modification] 351605009546 intermolecular recognition site; other site 351605009547 dimerization interface [polypeptide binding]; other site 351605009548 PAS domain; Region: PAS_9; pfam13426 351605009549 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 351605009550 putative active site [active] 351605009551 heme pocket [chemical binding]; other site 351605009552 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 351605009553 dimer interface [polypeptide binding]; other site 351605009554 phosphorylation site [posttranslational modification] 351605009555 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 351605009556 ATP binding site [chemical binding]; other site 351605009557 Mg2+ binding site [ion binding]; other site 351605009558 G-X-G motif; other site 351605009559 Cache domain; Region: Cache_2; pfam08269 351605009560 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 351605009561 dimerization interface [polypeptide binding]; other site 351605009562 PAS domain; Region: PAS_9; pfam13426 351605009563 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 351605009564 PAS domain; Region: PAS_9; pfam13426 351605009565 putative active site [active] 351605009566 heme pocket [chemical binding]; other site 351605009567 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 351605009568 dimer interface [polypeptide binding]; other site 351605009569 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 351605009570 putative CheW interface [polypeptide binding]; other site 351605009571 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 351605009572 putative CheA interaction surface; other site 351605009573 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 351605009574 dimerization interface [polypeptide binding]; other site 351605009575 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 351605009576 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 351605009577 dimer interface [polypeptide binding]; other site 351605009578 putative CheW interface [polypeptide binding]; other site 351605009579 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 351605009580 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 351605009581 putative binding surface; other site 351605009582 active site 351605009583 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 351605009584 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 351605009585 ATP binding site [chemical binding]; other site 351605009586 Mg2+ binding site [ion binding]; other site 351605009587 G-X-G motif; other site 351605009588 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 351605009589 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 351605009590 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605009591 active site 351605009592 phosphorylation site [posttranslational modification] 351605009593 intermolecular recognition site; other site 351605009594 dimerization interface [polypeptide binding]; other site 351605009595 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 351605009596 anti sigma factor interaction site; other site 351605009597 regulatory phosphorylation site [posttranslational modification]; other site 351605009598 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 351605009599 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 351605009600 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 351605009601 This entry represents the core domain of the ferrous iron (Fe2+) transport protein FeoA found in bacteria; Region: FeoA; smart00899 351605009602 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 351605009603 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 351605009604 G1 box; other site 351605009605 GTP/Mg2+ binding site [chemical binding]; other site 351605009606 Switch I region; other site 351605009607 G2 box; other site 351605009608 G3 box; other site 351605009609 Switch II region; other site 351605009610 G4 box; other site 351605009611 G5 box; other site 351605009612 Nucleoside recognition; Region: Gate; pfam07670 351605009613 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 351605009614 Nucleoside recognition; Region: Gate; pfam07670 351605009615 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 351605009616 metal binding site 2 [ion binding]; metal-binding site 351605009617 putative DNA binding helix; other site 351605009618 metal binding site 1 [ion binding]; metal-binding site 351605009619 dimer interface [polypeptide binding]; other site 351605009620 structural Zn2+ binding site [ion binding]; other site 351605009621 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 351605009622 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 351605009623 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 351605009624 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 351605009625 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 351605009626 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 351605009627 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 351605009628 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 351605009629 dimerization domain [polypeptide binding]; other site 351605009630 dimer interface [polypeptide binding]; other site 351605009631 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 351605009632 catalytic residues [active] 351605009633 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 351605009634 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 351605009635 homotetramer interface [polypeptide binding]; other site 351605009636 ligand binding site [chemical binding]; other site 351605009637 catalytic site [active] 351605009638 NAD binding site [chemical binding]; other site 351605009639 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 351605009640 dimerization interface [polypeptide binding]; other site 351605009641 putative DNA binding site [nucleotide binding]; other site 351605009642 putative Zn2+ binding site [ion binding]; other site 351605009643 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 351605009644 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 351605009645 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 351605009646 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 351605009647 FMN binding site [chemical binding]; other site 351605009648 substrate binding site [chemical binding]; other site 351605009649 putative catalytic residue [active] 351605009650 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 351605009651 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 351605009652 sequence-specific DNA binding site [nucleotide binding]; other site 351605009653 salt bridge; other site 351605009654 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 351605009655 active site 351605009656 catalytic residues [active] 351605009657 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 351605009658 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 351605009659 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 351605009660 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 351605009661 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 351605009662 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 351605009663 Bacterial Ig-like domain; Region: Big_5; pfam13205 351605009664 Bacterial Ig-like domain; Region: Big_5; pfam13205 351605009665 Bacterial Ig-like domain; Region: Big_5; pfam13205 351605009666 Bacterial Ig-like domain; Region: Big_5; pfam13205 351605009667 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 351605009668 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 351605009669 calcium mediated ligand binding site; other site 351605009670 intermolecular salt bridges; other site 351605009671 Bacterial Ig-like domain; Region: Big_5; pfam13205 351605009672 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 351605009673 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 351605009674 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 351605009675 putative active site [active] 351605009676 Transposase IS200 like; Region: Y1_Tnp; pfam01797 351605009677 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 351605009678 DnaA box-binding interface [nucleotide binding]; other site 351605009679 alpha-galactosidase; Region: PLN02899 351605009680 Transposase IS200 like; Region: Y1_Tnp; pfam01797 351605009681 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; cl07055 351605009682 DnaA box-binding interface [nucleotide binding]; other site 351605009683 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 351605009684 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 351605009685 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 351605009686 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 351605009687 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 351605009688 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 351605009689 Bacterial Ig-like domain; Region: Big_5; pfam13205 351605009690 Bacterial Ig-like domain; Region: Big_5; pfam13205 351605009691 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 351605009692 C-terminal processing peptidase-like; serine protease family S41; Region: Peptidase_S41_CPP_like; cd07561 351605009693 Catalytic dyad [active] 351605009694 PAS domain; Region: PAS_9; pfam13426 351605009695 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 351605009696 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 351605009697 putative active site [active] 351605009698 heme pocket [chemical binding]; other site 351605009699 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 351605009700 dimer interface [polypeptide binding]; other site 351605009701 phosphorylation site [posttranslational modification] 351605009702 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 351605009703 ATP binding site [chemical binding]; other site 351605009704 Mg2+ binding site [ion binding]; other site 351605009705 G-X-G motif; other site 351605009706 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 351605009707 catalytic motif [active] 351605009708 Catalytic residue [active] 351605009709 Homeodomain-like domain; Region: HTH_32; pfam13565 351605009710 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 351605009711 Integrase core domain; Region: rve; pfam00665 351605009712 Integrase core domain; Region: rve_3; pfam13683 351605009713 HTH-like domain; Region: HTH_21; pfam13276 351605009714 Integrase core domain; Region: rve; pfam00665 351605009715 Homeodomain-like domain; Region: HTH_23; cl17451 351605009716 GxxExxY protein; Region: GxxExxY; TIGR04256 351605009717 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 351605009718 Coenzyme A transferase; Region: CoA_trans; cl17247 351605009719 Coenzyme A transferase; Region: CoA_trans; smart00882 351605009720 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 351605009721 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 351605009722 active site 351605009723 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 351605009724 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 351605009725 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 351605009726 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 351605009727 Ligand binding site [chemical binding]; other site 351605009728 Electron transfer flavoprotein domain; Region: ETF; pfam01012 351605009729 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 351605009730 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 351605009731 4Fe-4S binding domain; Region: Fer4; cl02805 351605009732 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 351605009733 Cysteine-rich domain; Region: CCG; pfam02754 351605009734 Cysteine-rich domain; Region: CCG; pfam02754 351605009735 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 351605009736 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 351605009737 FAD binding site [chemical binding]; other site 351605009738 homotetramer interface [polypeptide binding]; other site 351605009739 substrate binding pocket [chemical binding]; other site 351605009740 catalytic base [active] 351605009741 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 351605009742 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 351605009743 substrate binding site [chemical binding]; other site 351605009744 oxyanion hole (OAH) forming residues; other site 351605009745 trimer interface [polypeptide binding]; other site 351605009746 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07530 351605009747 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 351605009748 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 351605009749 putative acyltransferase; Provisional; Region: PRK05790 351605009750 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 351605009751 dimer interface [polypeptide binding]; other site 351605009752 active site 351605009753 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 351605009754 putative DNA binding site [nucleotide binding]; other site 351605009755 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 351605009756 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 351605009757 Mg2+ binding site [ion binding]; other site 351605009758 G-X-G motif; other site 351605009759 Domain of unknown function (DUF4325); Region: DUF4325; pfam14213 351605009760 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 351605009761 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 351605009762 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 351605009763 dimer interface [polypeptide binding]; other site 351605009764 putative CheW interface [polypeptide binding]; other site 351605009765 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 351605009766 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 351605009767 Mg++ binding site [ion binding]; other site 351605009768 putative catalytic motif [active] 351605009769 substrate binding site [chemical binding]; other site 351605009770 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 351605009771 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 351605009772 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 351605009773 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 351605009774 Family description; Region: VCBS; pfam13517 351605009775 Family description; Region: VCBS; pfam13517 351605009776 Family description; Region: VCBS; pfam13517 351605009777 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 351605009778 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 351605009779 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_6; cd04955 351605009780 Beta-N-acetylhexosaminidases of glycosyl hydrolase family 20 (GH20) catalyze the removal of beta-1,4-linked N-acetyl-D-hexosamine residues from the non-reducing ends of N-acetyl-beta-D-hexosaminides including N-acetylglucosides and N-acetylgalactosides; Region: GH20_hexosaminidase; cl02948 351605009781 active site 351605009782 antitoxin MqsA for MqsR toxin; Region: MqsA; cl15819 351605009783 Zn binding site [ion binding]; other site 351605009784 Methyltransferase domain; Region: Methyltransf_23; pfam13489 351605009785 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 351605009786 S-adenosylmethionine binding site [chemical binding]; other site 351605009787 RfbF is a putative dTDP-rhamnosyl transferase; Region: GT2_RfbF_like; cd02526 351605009788 L-rhamnosyltransferase; Region: rhamnosyltran; TIGR01556 351605009789 Ligand binding site; other site 351605009790 Protein of unknown function (DUF616); Region: DUF616; pfam04765 351605009791 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 351605009792 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 351605009793 active site 351605009794 Methyltransferase domain; Region: Methyltransf_23; pfam13489 351605009795 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 351605009796 S-adenosylmethionine binding site [chemical binding]; other site 351605009797 Methyltransferase domain; Region: Methyltransf_23; pfam13489 351605009798 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 351605009799 S-adenosylmethionine binding site [chemical binding]; other site 351605009800 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 351605009801 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 351605009802 Chain length determinant protein; Region: Wzz; pfam02706 351605009803 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 351605009804 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 351605009805 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 351605009806 SLBB domain; Region: SLBB; pfam10531 351605009807 SLBB domain; Region: SLBB; pfam10531 351605009808 SLBB domain; Region: SLBB; pfam10531 351605009809 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 351605009810 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 351605009811 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 351605009812 dimerization interface [polypeptide binding]; other site 351605009813 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 351605009814 dimer interface [polypeptide binding]; other site 351605009815 putative CheW interface [polypeptide binding]; other site 351605009816 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 351605009817 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 351605009818 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 351605009819 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 351605009820 Fic family protein [Function unknown]; Region: COG3177 351605009821 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 351605009822 Fic/DOC family; Region: Fic; pfam02661 351605009823 Ricin-type beta-trefoil lectin domain-like; Region: RicinB_lectin_2; pfam14200 351605009824 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cl15820 351605009825 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 351605009826 Fic family protein [Function unknown]; Region: COG3177 351605009827 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 351605009828 Fic/DOC family; Region: Fic; pfam02661 351605009829 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 351605009830 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 351605009831 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 351605009832 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 351605009833 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 351605009834 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 351605009835 binding surface 351605009836 TPR motif; other site 351605009837 Tetratricopeptide repeat; Region: TPR_12; pfam13424 351605009838 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 351605009839 binding surface 351605009840 Tetratricopeptide repeat; Region: TPR_16; pfam13432 351605009841 TPR motif; other site 351605009842 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 351605009843 binding surface 351605009844 TPR motif; other site 351605009845 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 351605009846 type III secretion protein HrpB1/HrpK; Region: HrpB1_HrpK; TIGR02561 351605009847 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 351605009848 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 351605009849 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 351605009850 ligand binding site [chemical binding]; other site 351605009851 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 351605009852 ligand binding site [chemical binding]; other site 351605009853 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 351605009854 Domain of unknown function DUF11; Region: DUF11; pfam01345 351605009855 Domain of unknown function DUF11; Region: DUF11; cl17728 351605009856 fimbrial isopeptide formation D2 domain; Region: RrgB_K2N_iso_D2; TIGR04226 351605009857 fimbrial isopeptide formation D2 domain; Region: RrgB_K2N_iso_D2; TIGR04226 351605009858 conserved repeat domain; Region: B_ant_repeat; TIGR01451 351605009859 conserved repeat domain; Region: B_ant_repeat; TIGR01451 351605009860 Domain of unknown function DUF11; Region: DUF11; cl17728 351605009861 Domain of unknown function DUF11; Region: DUF11; pfam01345 351605009862 integrase; Provisional; Region: PRK09692 351605009863 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 351605009864 active site 351605009865 Int/Topo IB signature motif; other site 351605009866 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 351605009867 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 351605009868 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 351605009869 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 351605009870 FeS/SAM binding site; other site 351605009871 Domain of unknown function (DUF4070); Region: DUF4070; pfam13282 351605009872 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 351605009873 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 351605009874 HlyD family secretion protein; Region: HlyD_3; pfam13437 351605009875 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 351605009876 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 351605009877 putative substrate translocation pore; other site 351605009878 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 351605009879 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 351605009880 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 351605009881 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 351605009882 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 351605009883 active site 351605009884 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 351605009885 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 351605009886 putative NADP binding site [chemical binding]; other site 351605009887 KR domain; Region: KR; pfam08659 351605009888 active site 351605009889 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 351605009890 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 351605009891 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 351605009892 active site 351605009893 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 351605009894 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 351605009895 KR domain; Region: KR; pfam08659 351605009896 putative NADP binding site [chemical binding]; other site 351605009897 active site 351605009898 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 351605009899 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 351605009900 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 351605009901 active site 351605009902 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 351605009903 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 351605009904 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 351605009905 putative NADP binding site [chemical binding]; other site 351605009906 active site 351605009907 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 351605009908 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 351605009909 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 351605009910 active site 351605009911 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 351605009912 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 351605009913 putative NADP binding site [chemical binding]; other site 351605009914 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 351605009915 active site 351605009916 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 351605009917 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 351605009918 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 351605009919 active site 351605009920 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 351605009921 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 351605009922 putative NADP binding site [chemical binding]; other site 351605009923 active site 351605009924 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 351605009925 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 351605009926 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 351605009927 active site 351605009928 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 351605009929 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 351605009930 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 351605009931 active site 351605009932 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 351605009933 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 351605009934 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 351605009935 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 351605009936 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 351605009937 active site 351605009938 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 351605009939 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 351605009940 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 351605009941 putative NADP binding site [chemical binding]; other site 351605009942 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 351605009943 active site 351605009944 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 351605009945 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 351605009946 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 351605009947 active site 351605009948 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 351605009949 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 351605009950 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 351605009951 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 351605009952 active site 351605009953 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 351605009954 putative NADP binding site [chemical binding]; other site 351605009955 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 351605009956 active site 351605009957 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 351605009958 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 351605009959 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 351605009960 active site 351605009961 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 351605009962 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 351605009963 active site 351605009964 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 351605009965 putative NADP binding site [chemical binding]; other site 351605009966 active site 351605009967 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 351605009968 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 351605009969 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 351605009970 active site 351605009971 Transposase, Mutator family; Region: Transposase_mut; pfam00872 351605009972 MULE transposase domain; Region: MULE; pfam10551 351605009973 Rubredoxin [Energy production and conversion]; Region: COG1773 351605009974 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 351605009975 iron binding site [ion binding]; other site 351605009976 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 351605009977 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 351605009978 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 351605009979 catalytic residue [active] 351605009980 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 351605009981 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 351605009982 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 351605009983 trimer interface [polypeptide binding]; other site 351605009984 active site 351605009985 UDP-GlcNAc binding site [chemical binding]; other site 351605009986 lipid binding site [chemical binding]; lipid-binding site 351605009987 Transposase; Region: HTH_Tnp_1; cl17663 351605009988 Response regulator receiver domain; Region: Response_reg; pfam00072 351605009989 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605009990 active site 351605009991 phosphorylation site [posttranslational modification] 351605009992 intermolecular recognition site; other site 351605009993 dimerization interface [polypeptide binding]; other site 351605009994 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 351605009995 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 351605009996 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 351605009997 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 351605009998 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 351605009999 2-Nitropropane dioxygenase (NPD)-like domain, associated with the (acyl-carrier-protein) S-malonyltransferase FabD. NPD is part of the nitroalkaneoxidizing enzyme family, that catalyzes oxidative denitrification of nitroalkanes to their corresponding...; Region: NPD_FabD; cd04742 351605010000 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 351605010001 FMN binding site [chemical binding]; other site 351605010002 substrate binding site [chemical binding]; other site 351605010003 putative catalytic residue [active] 351605010004 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 351605010005 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 351605010006 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 351605010007 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 351605010008 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 351605010009 integron integrase; Region: integrase_gron; TIGR02249 351605010010 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 351605010011 active site 351605010012 DNA binding site [nucleotide binding] 351605010013 Int/Topo IB signature motif; other site 351605010014 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 351605010015 Putative transposase; Region: Y2_Tnp; pfam04986 351605010016 Autoinducer synthetase; Region: Autoind_synth; cl17404 351605010017 Autoinducer binding domain; Region: Autoind_bind; pfam03472 351605010018 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 351605010019 DNA binding residues [nucleotide binding] 351605010020 dimerization interface [polypeptide binding]; other site 351605010021 Transposase; Region: DEDD_Tnp_IS110; pfam01548 351605010022 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 351605010023 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 351605010024 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 351605010025 putative protofilament interface [polypeptide binding]; other site 351605010026 nucleotide binding site [chemical binding]; other site 351605010027 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 351605010028 active site 351605010029 NTP binding site [chemical binding]; other site 351605010030 metal binding triad [ion binding]; metal-binding site 351605010031 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 351605010032 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 351605010033 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 351605010034 phosphoglycolate phosphatase; Provisional; Region: PRK13222 351605010035 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 351605010036 motif II; other site 351605010037 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 351605010038 GMP synthase; Reviewed; Region: guaA; PRK00074 351605010039 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 351605010040 AMP/PPi binding site [chemical binding]; other site 351605010041 candidate oxyanion hole; other site 351605010042 catalytic triad [active] 351605010043 potential glutamine specificity residues [chemical binding]; other site 351605010044 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 351605010045 ATP Binding subdomain [chemical binding]; other site 351605010046 Ligand Binding sites [chemical binding]; other site 351605010047 Dimerization subdomain; other site 351605010048 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 351605010049 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 351605010050 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 351605010051 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 351605010052 active site 351605010053 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 351605010054 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 351605010055 oligomer interface [polypeptide binding]; other site 351605010056 active site 351605010057 metal binding site [ion binding]; metal-binding site 351605010058 Bifunctional nuclease; Region: DNase-RNase; pfam02577 351605010059 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 351605010060 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 351605010061 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 351605010062 FeS/SAM binding site; other site 351605010063 TRAM domain; Region: TRAM; pfam01938 351605010064 Protein of unknown function (DUF3373); Region: DUF3373; pfam11853 351605010065 ABC transporter substrate binding protein; Region: ABC_sub_bind; cl17301 351605010066 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 351605010067 Cytochrome c bacterial; Region: Cytochrome_cB; pfam11783 351605010068 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 351605010069 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 351605010070 DNA polymerase III, delta subunit; Region: holA; TIGR01128 351605010071 Lipopolysaccharide-assembly; Region: LptE; pfam04390 351605010072 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 351605010073 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 351605010074 HIGH motif; other site 351605010075 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 351605010076 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 351605010077 active site 351605010078 KMSKS motif; other site 351605010079 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 351605010080 tRNA binding surface [nucleotide binding]; other site 351605010081 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 351605010082 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 351605010083 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 351605010084 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 351605010085 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 351605010086 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 351605010087 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 351605010088 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 351605010089 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 351605010090 Response regulator receiver domain; Region: Response_reg; pfam00072 351605010091 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605010092 active site 351605010093 phosphorylation site [posttranslational modification] 351605010094 intermolecular recognition site; other site 351605010095 dimerization interface [polypeptide binding]; other site 351605010096 GAF domain; Region: GAF_2; pfam13185 351605010097 GAF domain; Region: GAF_3; pfam13492 351605010098 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 351605010099 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605010100 active site 351605010101 phosphorylation site [posttranslational modification] 351605010102 intermolecular recognition site; other site 351605010103 dimerization interface [polypeptide binding]; other site 351605010104 CheB methylesterase; Region: CheB_methylest; pfam01339 351605010105 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 351605010106 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 351605010107 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 351605010108 S-adenosylmethionine binding site [chemical binding]; other site 351605010109 HEAT repeats; Region: HEAT_2; pfam13646 351605010110 HEAT repeats; Region: HEAT_2; pfam13646 351605010111 HEAT repeat; Region: HEAT; pfam02985 351605010112 HEAT repeats; Region: HEAT_2; pfam13646 351605010113 HEAT repeats; Region: HEAT_2; pfam13646 351605010114 HEAT repeats; Region: HEAT_2; pfam13646 351605010115 HEAT repeats; Region: HEAT_2; pfam13646 351605010116 HEAT repeats; Region: HEAT_2; pfam13646 351605010117 zinc-ribbon domain; Region: zinc_ribbon_5; pfam13719 351605010118 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 351605010119 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605010120 active site 351605010121 phosphorylation site [posttranslational modification] 351605010122 intermolecular recognition site; other site 351605010123 dimerization interface [polypeptide binding]; other site 351605010124 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 351605010125 putative CheA interaction surface; other site 351605010126 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605010127 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 351605010128 active site 351605010129 phosphorylation site [posttranslational modification] 351605010130 intermolecular recognition site; other site 351605010131 dimerization interface [polypeptide binding]; other site 351605010132 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 351605010133 putative CheA interaction surface; other site 351605010134 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 351605010135 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 351605010136 Walker A motif; other site 351605010137 ATP binding site [chemical binding]; other site 351605010138 Walker B motif; other site 351605010139 arginine finger; other site 351605010140 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 351605010141 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 351605010142 putative binding surface; other site 351605010143 active site 351605010144 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 351605010145 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 351605010146 ATP binding site [chemical binding]; other site 351605010147 Mg2+ binding site [ion binding]; other site 351605010148 G-X-G motif; other site 351605010149 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 351605010150 Response regulator receiver domain; Region: Response_reg; pfam00072 351605010151 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605010152 active site 351605010153 phosphorylation site [posttranslational modification] 351605010154 intermolecular recognition site; other site 351605010155 dimerization interface [polypeptide binding]; other site 351605010156 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 351605010157 GAF domain; Region: GAF; cl17456 351605010158 GTP-binding protein Der; Reviewed; Region: PRK00093 351605010159 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 351605010160 G1 box; other site 351605010161 GTP/Mg2+ binding site [chemical binding]; other site 351605010162 Switch I region; other site 351605010163 G2 box; other site 351605010164 Switch II region; other site 351605010165 G3 box; other site 351605010166 G4 box; other site 351605010167 G5 box; other site 351605010168 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 351605010169 G1 box; other site 351605010170 GTP/Mg2+ binding site [chemical binding]; other site 351605010171 Switch I region; other site 351605010172 G2 box; other site 351605010173 G3 box; other site 351605010174 Switch II region; other site 351605010175 G4 box; other site 351605010176 G5 box; other site 351605010177 GTPase Era; Reviewed; Region: era; PRK00089 351605010178 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 351605010179 G1 box; other site 351605010180 GTP/Mg2+ binding site [chemical binding]; other site 351605010181 Switch I region; other site 351605010182 G2 box; other site 351605010183 Switch II region; other site 351605010184 G3 box; other site 351605010185 G4 box; other site 351605010186 G5 box; other site 351605010187 KH domain; Region: KH_2; pfam07650 351605010188 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 351605010189 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 351605010190 FeS/SAM binding site; other site 351605010191 ribonuclease III; Reviewed; Region: rnc; PRK00102 351605010192 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 351605010193 dimerization interface [polypeptide binding]; other site 351605010194 active site 351605010195 metal binding site [ion binding]; metal-binding site 351605010196 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 351605010197 dsRNA binding site [nucleotide binding]; other site 351605010198 thymidylate kinase; Validated; Region: tmk; PRK00698 351605010199 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 351605010200 TMP-binding site; other site 351605010201 ATP-binding site [chemical binding]; other site 351605010202 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 351605010203 DNA polymerase III subunit delta'; Validated; Region: PRK08485 351605010204 ATPase involved in DNA replication [DNA replication, recombination, and repair]; Region: HolB; COG0470 351605010205 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 351605010206 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 351605010207 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 351605010208 active site 351605010209 HIGH motif; other site 351605010210 KMSKS motif; other site 351605010211 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 351605010212 tRNA binding surface [nucleotide binding]; other site 351605010213 anticodon binding site; other site 351605010214 Uncharacterized conserved protein [Function unknown]; Region: COG1434 351605010215 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 351605010216 putative active site [active] 351605010217 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 351605010218 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 351605010219 homotrimer interaction site [polypeptide binding]; other site 351605010220 putative active site [active] 351605010221 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 351605010222 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 351605010223 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 351605010224 synthetase active site [active] 351605010225 NTP binding site [chemical binding]; other site 351605010226 metal binding site [ion binding]; metal-binding site 351605010227 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 351605010228 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 351605010229 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 351605010230 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 351605010231 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 351605010232 catalytic site [active] 351605010233 G-X2-G-X-G-K; other site 351605010234 hypothetical protein; Provisional; Region: PRK11820 351605010235 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 351605010236 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 351605010237 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 351605010238 putative active site [active] 351605010239 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 351605010240 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 351605010241 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 351605010242 active site 351605010243 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 351605010244 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 351605010245 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 351605010246 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 351605010247 metal-binding site 351605010248 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 351605010249 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 351605010250 NAD binding site [chemical binding]; other site 351605010251 homodimer interface [polypeptide binding]; other site 351605010252 active site 351605010253 substrate binding site [chemical binding]; other site 351605010254 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 351605010255 active site 351605010256 NTP binding site [chemical binding]; other site 351605010257 metal binding triad [ion binding]; metal-binding site 351605010258 antibiotic binding site [chemical binding]; other site 351605010259 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 351605010260 AAA domain; Region: AAA_14; pfam13173 351605010261 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 351605010262 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 351605010263 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 351605010264 Bacterial sugar transferase; Region: Bac_transf; pfam02397 351605010265 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 351605010266 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 351605010267 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 351605010268 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 351605010269 active site 351605010270 catalytic site [active] 351605010271 Sulfatase; Region: Sulfatase; cl17466 351605010272 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 351605010273 Transposase; Region: DDE_Tnp_ISL3; pfam01610 351605010274 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp1; TIGR03087 351605010275 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 351605010276 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 351605010277 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp1; TIGR03087 351605010278 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 351605010279 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 351605010280 Probable Catalytic site; other site 351605010281 metal-binding site 351605010282 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 351605010283 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 351605010284 NAD(P) binding site [chemical binding]; other site 351605010285 active site 351605010286 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 351605010287 trimer interface [polypeptide binding]; other site 351605010288 active site 351605010289 substrate binding site [chemical binding]; other site 351605010290 CoA binding site [chemical binding]; other site 351605010291 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 351605010292 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 351605010293 active site 351605010294 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 351605010295 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_10; cd13125 351605010296 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 351605010297 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 351605010298 inhibitor-cofactor binding pocket; inhibition site 351605010299 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351605010300 catalytic residue [active] 351605010301 WxcM-like, C-terminal; Region: FdtA; pfam05523 351605010302 Methyltransferase domain; Region: Methyltransf_23; pfam13489 351605010303 Methyltransferase domain; Region: Methyltransf_12; pfam08242 351605010304 S-adenosylmethionine binding site [chemical binding]; other site 351605010305 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase_4; pfam13669 351605010306 active site 351605010307 metal binding site [ion binding]; metal-binding site 351605010308 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 351605010309 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 351605010310 FkbH-like domain; Region: FkbH; TIGR01686 351605010311 Acid Phosphatase; Region: Acid_PPase; cl17256 351605010312 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 351605010313 Protein of unknown function DUF86; Region: DUF86; cl01031 351605010314 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 351605010315 active site 351605010316 NTP binding site [chemical binding]; other site 351605010317 metal binding triad [ion binding]; metal-binding site 351605010318 antibiotic binding site [chemical binding]; other site 351605010319 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 351605010320 Putative addiction module component; Region: Unstab_antitox; pfam09720 351605010321 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 351605010322 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 351605010323 NADP binding site [chemical binding]; other site 351605010324 active site 351605010325 putative substrate binding site [chemical binding]; other site 351605010326 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 351605010327 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 351605010328 NADP-binding site; other site 351605010329 homotetramer interface [polypeptide binding]; other site 351605010330 substrate binding site [chemical binding]; other site 351605010331 homodimer interface [polypeptide binding]; other site 351605010332 active site 351605010333 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 351605010334 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 351605010335 putative ribose interaction site [chemical binding]; other site 351605010336 putative ADP binding site [chemical binding]; other site 351605010337 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 351605010338 active site 351605010339 nucleotide binding site [chemical binding]; other site 351605010340 HIGH motif; other site 351605010341 KMSKS motif; other site 351605010342 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 351605010343 four helix bundle protein; Region: TIGR02436 351605010344 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 351605010345 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 351605010346 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 351605010347 putative active site [active] 351605010348 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 351605010349 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 351605010350 putative active site [active] 351605010351 Homeodomain-like domain; Region: HTH_23; pfam13384 351605010352 Winged helix-turn helix; Region: HTH_29; pfam13551 351605010353 Integrase core domain; Region: rve; pfam00665 351605010354 Integrase core domain; Region: rve_3; cl15866 351605010355 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 351605010356 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 351605010357 active site 351605010358 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 351605010359 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 351605010360 metal-binding site 351605010361 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 351605010362 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 351605010363 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 351605010364 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 351605010365 Probable Catalytic site; other site 351605010366 metal-binding site 351605010367 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 351605010368 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 351605010369 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 351605010370 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 351605010371 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 351605010372 N-terminal domain of Chondroitin polymerase functions as a GalNAc transferase; Region: GT2_Chondriotin_Pol_N; cd06420 351605010373 Substrate binding site; other site 351605010374 metal-binding site 351605010375 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 351605010376 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 351605010377 putative metal binding site; other site 351605010378 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 351605010379 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 351605010380 putative active site [active] 351605010381 Uncharacterized conserved protein [Function unknown]; Region: COG2835 351605010382 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 351605010383 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 351605010384 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 351605010385 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 351605010386 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 351605010387 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 351605010388 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 351605010389 putative acyl-acceptor binding pocket; other site 351605010390 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 351605010391 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 351605010392 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 351605010393 Walker A/P-loop; other site 351605010394 ATP binding site [chemical binding]; other site 351605010395 Q-loop/lid; other site 351605010396 ABC transporter signature motif; other site 351605010397 Walker B; other site 351605010398 D-loop; other site 351605010399 H-loop/switch region; other site 351605010400 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 351605010401 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 351605010402 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 351605010403 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 351605010404 active site 351605010405 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 351605010406 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 351605010407 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 351605010408 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 351605010409 trimer interface [polypeptide binding]; other site 351605010410 active site 351605010411 UDP-GlcNAc binding site [chemical binding]; other site 351605010412 lipid binding site [chemical binding]; lipid-binding site 351605010413 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 351605010414 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 351605010415 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 351605010416 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 351605010417 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 351605010418 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 351605010419 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 351605010420 Surface antigen; Region: Bac_surface_Ag; pfam01103 351605010421 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 351605010422 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 351605010423 Walker A/P-loop; other site 351605010424 ATP binding site [chemical binding]; other site 351605010425 Q-loop/lid; other site 351605010426 ABC transporter signature motif; other site 351605010427 Walker B; other site 351605010428 D-loop; other site 351605010429 H-loop/switch region; other site 351605010430 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 351605010431 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 351605010432 FtsX-like permease family; Region: FtsX; pfam02687 351605010433 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 351605010434 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 351605010435 dimer interface [polypeptide binding]; other site 351605010436 putative anticodon binding site; other site 351605010437 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 351605010438 motif 1; other site 351605010439 active site 351605010440 motif 2; other site 351605010441 motif 3; other site 351605010442 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 351605010443 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351605010444 Walker A/P-loop; other site 351605010445 ATP binding site [chemical binding]; other site 351605010446 Q-loop/lid; other site 351605010447 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351605010448 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 351605010449 ABC transporter signature motif; other site 351605010450 Walker B; other site 351605010451 D-loop; other site 351605010452 ABC transporter; Region: ABC_tran_2; pfam12848 351605010453 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 351605010454 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 351605010455 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 351605010456 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 351605010457 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 351605010458 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 351605010459 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 351605010460 S-adenosylmethionine binding site [chemical binding]; other site 351605010461 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 351605010462 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 351605010463 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 351605010464 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 351605010465 substrate-cofactor binding pocket; other site 351605010466 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351605010467 catalytic residue [active] 351605010468 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 351605010469 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 351605010470 putative active site [active] 351605010471 putative metal binding site [ion binding]; other site 351605010472 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 351605010473 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 351605010474 homodimer interface [polypeptide binding]; other site 351605010475 substrate-cofactor binding pocket; other site 351605010476 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351605010477 catalytic residue [active] 351605010478 4-alpha-glucanotransferase; Provisional; Region: PRK14508 351605010479 FtsH Extracellular; Region: FtsH_ext; pfam06480 351605010480 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 351605010481 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 351605010482 Walker A motif; other site 351605010483 ATP binding site [chemical binding]; other site 351605010484 Walker B motif; other site 351605010485 arginine finger; other site 351605010486 Peptidase family M41; Region: Peptidase_M41; pfam01434 351605010487 Uncharacterized conserved protein (DUF2276); Region: DUF2276; pfam10040 351605010488 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 351605010489 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 351605010490 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 351605010491 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 351605010492 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 351605010493 L-aspartate oxidase; Provisional; Region: PRK06175 351605010494 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 351605010495 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 351605010496 Succinate:quinone oxidoreductase (SQR)-like Type B subfamily 2, transmembrane subunit; composed of proteins with similarity to the SQRs of Geobacter metallireducens and Corynebacterium glutamicum. SQR catalyzes the oxidation of succinate to fumarate...; Region: SQR_TypeB_2_TM; cd03498 351605010497 putative Iron-sulfur protein interface [polypeptide binding]; other site 351605010498 proximal heme binding site [chemical binding]; other site 351605010499 distal heme binding site [chemical binding]; other site 351605010500 putative dimer interface [polypeptide binding]; other site 351605010501 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 351605010502 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 351605010503 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 351605010504 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 351605010505 homodimer interface [polypeptide binding]; other site 351605010506 metal binding site [ion binding]; metal-binding site 351605010507 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 351605010508 homodimer interface [polypeptide binding]; other site 351605010509 active site 351605010510 putative chemical substrate binding site [chemical binding]; other site 351605010511 metal binding site [ion binding]; metal-binding site 351605010512 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 351605010513 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 351605010514 DNA binding site [nucleotide binding] 351605010515 active site 351605010516 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 351605010517 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 351605010518 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 351605010519 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 351605010520 intersubunit interface [polypeptide binding]; other site 351605010521 active site 351605010522 Zn2+ binding site [ion binding]; other site 351605010523 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351605010524 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351605010525 metal binding site [ion binding]; metal-binding site 351605010526 active site 351605010527 I-site; other site 351605010528 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 351605010529 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 351605010530 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 351605010531 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 351605010532 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 351605010533 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 351605010534 Substrate binding site; other site 351605010535 Cupin domain; Region: Cupin_2; cl17218 351605010536 Cupin domain; Region: Cupin_2; cl17218 351605010537 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 351605010538 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 351605010539 NADP binding site [chemical binding]; other site 351605010540 active site 351605010541 putative substrate binding site [chemical binding]; other site 351605010542 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 351605010543 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 351605010544 NAD binding site [chemical binding]; other site 351605010545 substrate binding site [chemical binding]; other site 351605010546 homodimer interface [polypeptide binding]; other site 351605010547 active site 351605010548 DNA methylase; Region: N6_N4_Mtase; pfam01555 351605010549 DNA methylase; Region: N6_N4_Mtase; cl17433 351605010550 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 351605010551 Organic solvent tolerance protein; Region: OstA_C; pfam04453 351605010552 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 351605010553 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 351605010554 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 351605010555 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 351605010556 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 351605010557 substrate binding site [chemical binding]; other site 351605010558 active site 351605010559 catalytic residues [active] 351605010560 heterodimer interface [polypeptide binding]; other site 351605010561 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 351605010562 dimerization interface [polypeptide binding]; other site 351605010563 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 351605010564 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 351605010565 dimer interface [polypeptide binding]; other site 351605010566 putative CheW interface [polypeptide binding]; other site 351605010567 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 351605010568 dimer interface [polypeptide binding]; other site 351605010569 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 351605010570 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 351605010571 heme-binding residues [chemical binding]; other site 351605010572 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 351605010573 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 351605010574 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351605010575 Walker A/P-loop; other site 351605010576 ATP binding site [chemical binding]; other site 351605010577 Q-loop/lid; other site 351605010578 ABC transporter signature motif; other site 351605010579 Walker B; other site 351605010580 D-loop; other site 351605010581 H-loop/switch region; other site 351605010582 ABC transporter; Region: ABC_tran_2; pfam12848 351605010583 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 351605010584 ABC transporter; Region: ABC_tran_2; pfam12848 351605010585 Late embryogenesis abundant protein; Region: LEA_2; pfam03168 351605010586 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 351605010587 N-acetyl-D-glucosamine binding site [chemical binding]; other site 351605010588 catalytic residue [active] 351605010589 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 351605010590 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 351605010591 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351605010592 catalytic residue [active] 351605010593 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 351605010594 Protein export membrane protein; Region: SecD_SecF; cl14618 351605010595 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 351605010596 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605010597 active site 351605010598 phosphorylation site [posttranslational modification] 351605010599 intermolecular recognition site; other site 351605010600 dimerization interface [polypeptide binding]; other site 351605010601 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 351605010602 DNA binding site [nucleotide binding] 351605010603 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 351605010604 TIGR03987 family protein; Region: TIGR03987 351605010605 Tim44-like domain; Region: Tim44; pfam04280 351605010606 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 351605010607 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 351605010608 Zn2+ binding site [ion binding]; other site 351605010609 Mg2+ binding site [ion binding]; other site 351605010610 PilZ domain; Region: PilZ; pfam07238 351605010611 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 351605010612 intersubunit interface [polypeptide binding]; other site 351605010613 active site 351605010614 zinc binding site [ion binding]; other site 351605010615 Na+ binding site [ion binding]; other site 351605010616 sodium or proton efflux -- potassium uptake antiporter, P-type ATPase, alpha subunit; Region: ATPase-IIC_X-K; TIGR01106 351605010617 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 351605010618 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 351605010619 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 351605010620 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 351605010621 motif II; other site 351605010622 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 351605010623 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 351605010624 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 351605010625 active site residue [active] 351605010626 KilA-N domain; Region: KilA-N; pfam04383 351605010627 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 351605010628 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 351605010629 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 351605010630 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 351605010631 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 351605010632 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 351605010633 putative NADH binding site [chemical binding]; other site 351605010634 putative active site [active] 351605010635 nudix motif; other site 351605010636 putative metal binding site [ion binding]; other site 351605010637 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 351605010638 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 351605010639 dimerization interface [polypeptide binding]; other site 351605010640 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351605010641 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351605010642 metal binding site [ion binding]; metal-binding site 351605010643 active site 351605010644 I-site; other site 351605010645 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 351605010646 dimerization interface [polypeptide binding]; other site 351605010647 putative DNA binding site [nucleotide binding]; other site 351605010648 putative Zn2+ binding site [ion binding]; other site 351605010649 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 351605010650 Methyltransferase domain; Region: Methyltransf_31; pfam13847 351605010651 S-adenosylmethionine binding site [chemical binding]; other site 351605010652 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 351605010653 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 351605010654 dimerization interface [polypeptide binding]; other site 351605010655 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 351605010656 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 351605010657 dimer interface [polypeptide binding]; other site 351605010658 putative CheW interface [polypeptide binding]; other site 351605010659 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 351605010660 Zeta-crystallin with NADP-dependent quinone reductase activity (QOR); Region: zeta_crystallin; cd08253 351605010661 NAD(P) binding site [chemical binding]; other site 351605010662 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 351605010663 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 351605010664 active site 351605010665 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 351605010666 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 351605010667 NAD(P) binding site [chemical binding]; other site 351605010668 catalytic residues [active] 351605010669 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 351605010670 active site 351605010671 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like; cd07473 351605010672 catalytic triad [active] 351605010673 putative active site [active] 351605010674 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 351605010675 Putative Ig domain; Region: He_PIG; pfam05345 351605010676 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 351605010677 Putative Ig domain; Region: He_PIG; pfam05345 351605010678 Homeodomain-like domain; Region: HTH_32; pfam13565 351605010679 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 351605010680 Integrase core domain; Region: rve; pfam00665 351605010681 Integrase core domain; Region: rve_3; pfam13683 351605010682 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 351605010683 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_cladeD; cd03379 351605010684 active site clefts [active] 351605010685 zinc binding site [ion binding]; other site 351605010686 dimer interface [polypeptide binding]; other site 351605010687 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351605010688 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 351605010689 Walker A/P-loop; other site 351605010690 ATP binding site [chemical binding]; other site 351605010691 Q-loop/lid; other site 351605010692 ABC transporter signature motif; other site 351605010693 Walker B; other site 351605010694 D-loop; other site 351605010695 H-loop/switch region; other site 351605010696 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 351605010697 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 351605010698 dimer interface [polypeptide binding]; other site 351605010699 conserved gate region; other site 351605010700 putative PBP binding loops; other site 351605010701 ABC-ATPase subunit interface; other site 351605010702 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 351605010703 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 351605010704 molybdenum-pterin binding domain; Region: Mop; TIGR00638 351605010705 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 351605010706 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 351605010707 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 351605010708 thiamine ABC transporter, ATP-binding protein; Region: thiQ; TIGR01277 351605010709 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351605010710 Walker A/P-loop; other site 351605010711 ATP binding site [chemical binding]; other site 351605010712 Q-loop/lid; other site 351605010713 ABC transporter signature motif; other site 351605010714 Walker B; other site 351605010715 D-loop; other site 351605010716 H-loop/switch region; other site 351605010717 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 351605010718 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 351605010719 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 351605010720 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 351605010721 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 351605010722 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 351605010723 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 351605010724 S-adenosylmethionine binding site [chemical binding]; other site 351605010725 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 351605010726 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 351605010727 GAF domain; Region: GAF; pfam01590 351605010728 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 351605010729 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 351605010730 DNA binding residues [nucleotide binding] 351605010731 dimerization interface [polypeptide binding]; other site 351605010732 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 351605010733 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605010734 active site 351605010735 phosphorylation site [posttranslational modification] 351605010736 intermolecular recognition site; other site 351605010737 dimerization interface [polypeptide binding]; other site 351605010738 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 351605010739 Walker A motif; other site 351605010740 ATP binding site [chemical binding]; other site 351605010741 Walker B motif; other site 351605010742 arginine finger; other site 351605010743 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 351605010744 Predicted permeases [General function prediction only]; Region: COG0679 351605010745 Predicted membrane protein [Function unknown]; Region: COG2259 351605010746 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 351605010747 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 351605010748 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 351605010749 Magnesium ion binding site [ion binding]; other site 351605010750 V4R domain; Region: V4R; cl15268 351605010751 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 351605010752 Roadblock/LC7 domain; Region: Robl_LC7; smart00960 351605010753 Uncharacterized conserved protein [Function unknown]; Region: COG3287 351605010754 FIST N domain; Region: FIST; pfam08495 351605010755 FIST C domain; Region: FIST_C; pfam10442 351605010756 Protein of unknown function, DUF547; Region: DUF547; pfam04784 351605010757 Uncharacterized conserved protein [Function unknown]; Region: COG0398 351605010758 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 351605010759 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_4; cd07822 351605010760 putative hydrophobic ligand binding site [chemical binding]; other site 351605010761 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 351605010762 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 351605010763 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 351605010764 alkylhydroperoxidase AhpD family core domain; Region: ahpD_dom; TIGR00778 351605010765 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 351605010766 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 351605010767 aspartate aminotransferase; Provisional; Region: PRK06836 351605010768 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 351605010769 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351605010770 homodimer interface [polypeptide binding]; other site 351605010771 catalytic residue [active] 351605010772 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 351605010773 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 351605010774 active site 351605010775 dimerization interface [polypeptide binding]; other site 351605010776 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 351605010777 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 351605010778 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 351605010779 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 351605010780 HlyD family secretion protein; Region: HlyD_3; pfam13437 351605010781 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 351605010782 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 351605010783 dimer interface [polypeptide binding]; other site 351605010784 phosphorylation site [posttranslational modification] 351605010785 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 351605010786 ATP binding site [chemical binding]; other site 351605010787 Mg2+ binding site [ion binding]; other site 351605010788 G-X-G motif; other site 351605010789 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 351605010790 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 351605010791 Nitrogen regulatory protein P-II; Region: P-II; smart00938 351605010792 trans-homoaconitate synthase; Reviewed; Region: aksA; PRK11858 351605010793 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 351605010794 active site 351605010795 catalytic residues [active] 351605010796 metal binding site [ion binding]; metal-binding site 351605010797 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 351605010798 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 351605010799 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 351605010800 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 351605010801 GTP binding site; other site 351605010802 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 351605010803 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 351605010804 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 351605010805 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 351605010806 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 351605010807 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 351605010808 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 351605010809 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 351605010810 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 351605010811 [4Fe-4S] binding site [ion binding]; other site 351605010812 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 351605010813 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 351605010814 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 351605010815 molybdopterin cofactor binding site; other site 351605010816 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 351605010817 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605010818 active site 351605010819 phosphorylation site [posttranslational modification] 351605010820 intermolecular recognition site; other site 351605010821 dimerization interface [polypeptide binding]; other site 351605010822 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 351605010823 Walker A motif; other site 351605010824 ATP binding site [chemical binding]; other site 351605010825 Walker B motif; other site 351605010826 arginine finger; other site 351605010827 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 351605010828 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 351605010829 dimerization interface [polypeptide binding]; other site 351605010830 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 351605010831 dimer interface [polypeptide binding]; other site 351605010832 phosphorylation site [posttranslational modification] 351605010833 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 351605010834 ATP binding site [chemical binding]; other site 351605010835 Mg2+ binding site [ion binding]; other site 351605010836 G-X-G motif; other site 351605010837 PAS domain S-box; Region: sensory_box; TIGR00229 351605010838 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 351605010839 putative active site [active] 351605010840 heme pocket [chemical binding]; other site 351605010841 PAS domain S-box; Region: sensory_box; TIGR00229 351605010842 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 351605010843 putative active site [active] 351605010844 heme pocket [chemical binding]; other site 351605010845 PAS domain S-box; Region: sensory_box; TIGR00229 351605010846 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 351605010847 putative active site [active] 351605010848 heme pocket [chemical binding]; other site 351605010849 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 351605010850 putative active site [active] 351605010851 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 351605010852 heme pocket [chemical binding]; other site 351605010853 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 351605010854 dimer interface [polypeptide binding]; other site 351605010855 phosphorylation site [posttranslational modification] 351605010856 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 351605010857 ATP binding site [chemical binding]; other site 351605010858 Mg2+ binding site [ion binding]; other site 351605010859 G-X-G motif; other site 351605010860 PemK-like protein; Region: PemK; pfam02452 351605010861 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 351605010862 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 351605010863 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 351605010864 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 351605010865 FeS/SAM binding site; other site 351605010866 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 351605010867 putative active site [active] 351605010868 twin arginine translocase protein A; Provisional; Region: tatA; PRK14860 351605010869 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 351605010870 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 351605010871 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 351605010872 GTP binding site; other site 351605010873 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 351605010874 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 351605010875 4Fe-4S binding domain; Region: Fer4_6; pfam12837 351605010876 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 351605010877 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 351605010878 [4Fe-4S] binding site [ion binding]; other site 351605010879 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 351605010880 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 351605010881 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 351605010882 molybdopterin cofactor binding site; other site 351605010883 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 351605010884 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605010885 active site 351605010886 phosphorylation site [posttranslational modification] 351605010887 intermolecular recognition site; other site 351605010888 dimerization interface [polypeptide binding]; other site 351605010889 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 351605010890 Walker A motif; other site 351605010891 ATP binding site [chemical binding]; other site 351605010892 Walker B motif; other site 351605010893 arginine finger; other site 351605010894 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 351605010895 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 351605010896 dimerization interface [polypeptide binding]; other site 351605010897 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 351605010898 dimer interface [polypeptide binding]; other site 351605010899 phosphorylation site [posttranslational modification] 351605010900 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 351605010901 ATP binding site [chemical binding]; other site 351605010902 Mg2+ binding site [ion binding]; other site 351605010903 G-X-G motif; other site 351605010904 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 351605010905 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605010906 active site 351605010907 phosphorylation site [posttranslational modification] 351605010908 intermolecular recognition site; other site 351605010909 dimerization interface [polypeptide binding]; other site 351605010910 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 351605010911 Walker A motif; other site 351605010912 ATP binding site [chemical binding]; other site 351605010913 Walker B motif; other site 351605010914 arginine finger; other site 351605010915 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 351605010916 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 351605010917 dimerization interface [polypeptide binding]; other site 351605010918 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 351605010919 dimer interface [polypeptide binding]; other site 351605010920 phosphorylation site [posttranslational modification] 351605010921 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 351605010922 ATP binding site [chemical binding]; other site 351605010923 Mg2+ binding site [ion binding]; other site 351605010924 G-X-G motif; other site 351605010925 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 351605010926 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 351605010927 dimer interface [polypeptide binding]; other site 351605010928 putative functional site; other site 351605010929 putative MPT binding site; other site 351605010930 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 351605010931 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 351605010932 dimerization interface [polypeptide binding]; other site 351605010933 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 351605010934 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 351605010935 dimer interface [polypeptide binding]; other site 351605010936 putative CheW interface [polypeptide binding]; other site 351605010937 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 351605010938 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 351605010939 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 351605010940 propionate/acetate kinase; Provisional; Region: PRK12379 351605010941 zinc-ribbon domain; Region: zinc_ribbon_5; pfam13719 351605010942 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 351605010943 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 351605010944 active site 351605010945 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 351605010946 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 351605010947 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 351605010948 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 351605010949 BRO family, N-terminal domain; Region: Bro-N; smart01040 351605010950 Predicted transcriptional regulator [Transcription]; Region: COG2378 351605010951 WYL domain; Region: WYL; pfam13280 351605010952 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 351605010953 S-adenosylmethionine binding site [chemical binding]; other site 351605010954 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 351605010955 S-adenosylmethionine binding site [chemical binding]; other site 351605010956 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 351605010957 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 351605010958 Walker A/P-loop; other site 351605010959 ATP binding site [chemical binding]; other site 351605010960 Q-loop/lid; other site 351605010961 ABC transporter signature motif; other site 351605010962 Walker B; other site 351605010963 D-loop; other site 351605010964 H-loop/switch region; other site 351605010965 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 351605010966 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 351605010967 FtsX-like permease family; Region: FtsX; pfam02687 351605010968 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 351605010969 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 351605010970 HlyD family secretion protein; Region: HlyD_3; pfam13437 351605010971 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 351605010972 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 351605010973 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 351605010974 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 351605010975 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 351605010976 dimer interface [polypeptide binding]; other site 351605010977 phosphorylation site [posttranslational modification] 351605010978 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 351605010979 ATP binding site [chemical binding]; other site 351605010980 Mg2+ binding site [ion binding]; other site 351605010981 G-X-G motif; other site 351605010982 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 351605010983 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605010984 active site 351605010985 phosphorylation site [posttranslational modification] 351605010986 intermolecular recognition site; other site 351605010987 dimerization interface [polypeptide binding]; other site 351605010988 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 351605010989 Walker A motif; other site 351605010990 ATP binding site [chemical binding]; other site 351605010991 Walker B motif; other site 351605010992 arginine finger; other site 351605010993 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 351605010994 Cation efflux family; Region: Cation_efflux; cl00316 351605010995 Geobacter CxxxxCH...CXXCH motif (GSu_C4xC__C2xCH); Region: GSu_C4xC__C2xCH; pfam09698 351605010996 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 351605010997 Thermotoga maritima CorA_like subfamily; Region: TmCorA-like_1; cd12828 351605010998 oligomer interface [polypeptide binding]; other site 351605010999 metal binding site [ion binding]; metal-binding site 351605011000 metal binding site [ion binding]; metal-binding site 351605011001 Cl binding site [ion binding]; other site 351605011002 aspartate ring; other site 351605011003 basic sphincter; other site 351605011004 putative hydrophobic gate; other site 351605011005 periplasmic entrance; other site 351605011006 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 351605011007 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 351605011008 conserved hypothetical protein; Region: TIGR02231 351605011009 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 351605011010 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 351605011011 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 351605011012 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 351605011013 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 351605011014 Geobacter CxxxxCH...CXXCH motif (GSu_C4xC__C2xCH); Region: GSu_C4xC__C2xCH; pfam09698 351605011015 Geobacter CxxxxCH...CXXCH motif (GSu_C4xC__C2xCH); Region: GSu_C4xC__C2xCH; pfam09698 351605011016 Geobacter CxxxxCH...CXXCH motif (GSu_C4xC__C2xCH); Region: GSu_C4xC__C2xCH; pfam09698 351605011017 Geobacter CxxxxCH...CXXCH motif (GSu_C4xC__C2xCH); Region: GSu_C4xC__C2xCH; pfam09698 351605011018 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 351605011019 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 351605011020 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 351605011021 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 351605011022 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 351605011023 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 351605011024 non-specific DNA binding site [nucleotide binding]; other site 351605011025 salt bridge; other site 351605011026 sequence-specific DNA binding site [nucleotide binding]; other site 351605011027 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 351605011028 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 351605011029 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 351605011030 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 351605011031 NADH(P)-binding; Region: NAD_binding_10; pfam13460 351605011032 NAD(P) binding site [chemical binding]; other site 351605011033 active site 351605011034 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 351605011035 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 351605011036 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 351605011037 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 351605011038 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 351605011039 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 351605011040 hypothetical protein; Provisional; Region: PRK11239 351605011041 Protein of unknown function, DUF480; Region: DUF480; pfam04337 351605011042 EVE domain; Region: EVE; pfam01878 351605011043 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 351605011044 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 351605011045 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 351605011046 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 351605011047 motif II; other site 351605011048 Pirin-related protein [General function prediction only]; Region: COG1741 351605011049 Pirin; Region: Pirin; pfam02678 351605011050 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 351605011051 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 351605011052 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 351605011053 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 351605011054 Protein of unknown function DUF72; Region: DUF72; pfam01904 351605011055 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 351605011056 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 351605011057 DNA polymerase LigD, ligase domain; Region: NHEJ_ligase_lig; TIGR02779 351605011058 active site 351605011059 DNA binding site [nucleotide binding] 351605011060 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 351605011061 DNA binding site [nucleotide binding] 351605011062 MtLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Mycobacterium tuberculosis (Mt)LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: MtLigD_Pol_like; cd04863 351605011063 nucleotide binding site [chemical binding]; other site 351605011064 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 351605011065 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 351605011066 putative homodimer interface [polypeptide binding]; other site 351605011067 putative DNA binding site [nucleotide binding]; other site 351605011068 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 351605011069 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 351605011070 putative DNA binding site [nucleotide binding]; other site 351605011071 putative homodimer interface [polypeptide binding]; other site 351605011072 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 351605011073 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 351605011074 Cation efflux family; Region: Cation_efflux; pfam01545 351605011075 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 351605011076 Methyltransferase domain; Region: Methyltransf_23; pfam13489 351605011077 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 351605011078 S-adenosylmethionine binding site [chemical binding]; other site 351605011079 PAS domain S-box; Region: sensory_box; TIGR00229 351605011080 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 351605011081 putative active site [active] 351605011082 heme pocket [chemical binding]; other site 351605011083 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351605011084 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351605011085 metal binding site [ion binding]; metal-binding site 351605011086 active site 351605011087 I-site; other site 351605011088 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 351605011089 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 351605011090 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 351605011091 FeS/SAM binding site; other site 351605011092 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 351605011093 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_8; cd07246 351605011094 putative dimer interface [polypeptide binding]; other site 351605011095 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 351605011096 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 351605011097 Protein export membrane protein; Region: SecD_SecF; cl14618 351605011098 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 351605011099 Protein export membrane protein; Region: SecD_SecF; cl14618 351605011100 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 351605011101 Predicted membrane protein [Function unknown]; Region: COG3212 351605011102 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 351605011103 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 351605011104 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 351605011105 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 351605011106 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 351605011107 Walker A/P-loop; other site 351605011108 ATP binding site [chemical binding]; other site 351605011109 Q-loop/lid; other site 351605011110 ABC transporter signature motif; other site 351605011111 Walker B; other site 351605011112 D-loop; other site 351605011113 H-loop/switch region; other site 351605011114 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 351605011115 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 351605011116 FtsX-like permease family; Region: FtsX; pfam02687 351605011117 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 351605011118 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 351605011119 Walker A motif; other site 351605011120 ATP binding site [chemical binding]; other site 351605011121 Walker B motif; other site 351605011122 arginine finger; other site 351605011123 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, isobutyryl-CoA mutase (ICM)-like subfamily; contains archaeal and bacterial proteins similar to the large subunit of Streptomyces cinnamonensis coenzyme B12-dependent ICM. ICM...; Region: MM_CoA_mutase_ICM_like; cd03680 351605011124 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 351605011125 B12 binding site [chemical binding]; other site 351605011126 cobalt ligand [ion binding]; other site 351605011127 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 351605011128 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 351605011129 dimer interface [polypeptide binding]; other site 351605011130 PYR/PP interface [polypeptide binding]; other site 351605011131 TPP binding site [chemical binding]; other site 351605011132 substrate binding site [chemical binding]; other site 351605011133 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 351605011134 Domain of unknown function; Region: EKR; pfam10371 351605011135 4Fe-4S binding domain; Region: Fer4_6; pfam12837 351605011136 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 351605011137 TPP-binding site [chemical binding]; other site 351605011138 dimer interface [polypeptide binding]; other site 351605011139 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 351605011140 Malic enzyme, N-terminal domain; Region: malic; pfam00390 351605011141 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 351605011142 putative NAD(P) binding site [chemical binding]; other site 351605011143 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 351605011144 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 351605011145 CoA binding domain; Region: CoA_binding; smart00881 351605011146 CoA-ligase; Region: Ligase_CoA; pfam00549 351605011147 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 351605011148 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 351605011149 CoA-ligase; Region: Ligase_CoA; pfam00549 351605011150 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 351605011151 ATP-grasp domain; Region: ATP-grasp_4; cl17255 351605011152 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 351605011153 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 351605011154 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 351605011155 carboxyltransferase (CT) interaction site; other site 351605011156 biotinylation site [posttranslational modification]; other site 351605011157 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 351605011158 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 351605011159 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 351605011160 non-specific DNA binding site [nucleotide binding]; other site 351605011161 salt bridge; other site 351605011162 sequence-specific DNA binding site [nucleotide binding]; other site 351605011163 Cupin domain; Region: Cupin_2; pfam07883 351605011164 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 351605011165 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 351605011166 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 351605011167 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 351605011168 putative active site [active] 351605011169 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 351605011170 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 351605011171 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 351605011172 Zn2+ binding site [ion binding]; other site 351605011173 Mg2+ binding site [ion binding]; other site 351605011174 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 351605011175 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 351605011176 Protein export membrane protein; Region: SecD_SecF; cl14618 351605011177 multidrug efflux system protein MdtE; Provisional; Region: PRK09859 351605011178 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 351605011179 HlyD family secretion protein; Region: HlyD_3; pfam13437 351605011180 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 351605011181 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 351605011182 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 351605011183 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 351605011184 Catalytic site [active] 351605011185 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 351605011186 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 351605011187 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 351605011188 DNA binding residues [nucleotide binding] 351605011189 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 351605011190 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 351605011191 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 351605011192 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 351605011193 AAA domain; Region: AAA_14; pfam13173 351605011194 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 351605011195 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 351605011196 Methyltransferase domain; Region: Methyltransf_31; pfam13847 351605011197 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 351605011198 S-adenosylmethionine binding site [chemical binding]; other site 351605011199 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 351605011200 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 351605011201 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 351605011202 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 351605011203 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 351605011204 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 351605011205 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 351605011206 Methyltransferase domain; Region: Methyltransf_31; pfam13847 351605011207 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 351605011208 S-adenosylmethionine binding site [chemical binding]; other site 351605011209 Restriction endonuclease; Region: Mrr_cat; pfam04471 351605011210 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 351605011211 Predicted transcriptional regulators [Transcription]; Region: COG1733 351605011212 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 351605011213 dimerization interface [polypeptide binding]; other site 351605011214 putative DNA binding site [nucleotide binding]; other site 351605011215 putative Zn2+ binding site [ion binding]; other site 351605011216 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 351605011217 Nitroreductase-like family 3. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_3; cd02139 351605011218 putative FMN binding site [chemical binding]; other site 351605011219 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 351605011220 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; cl17869 351605011221 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 351605011222 YopX protein; Region: YopX; pfam09643 351605011223 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_8; cd07246 351605011224 putative dimer interface [polypeptide binding]; other site 351605011225 Predicted transcriptional regulator [Transcription]; Region: COG2378 351605011226 HTH domain; Region: HTH_11; pfam08279 351605011227 WYL domain; Region: WYL; pfam13280 351605011228 Uncharacterized conserved protein [Function unknown]; Region: COG5646 351605011229 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 351605011230 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 351605011231 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg3; cd01282 351605011232 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 351605011233 DNA binding residues [nucleotide binding] 351605011234 putative dimer interface [polypeptide binding]; other site 351605011235 Protein of unknown function (DUF1697); Region: DUF1697; pfam08002 351605011236 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 351605011237 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 351605011238 active site 351605011239 catalytic tetrad [active] 351605011240 MarR family; Region: MarR_2; cl17246 351605011241 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 351605011242 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 351605011243 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 351605011244 conserved cys residue [active] 351605011245 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 351605011246 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 351605011247 conserved cys residue [active] 351605011248 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 351605011249 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 351605011250 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 351605011251 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 351605011252 conserved cys residue [active] 351605011253 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 351605011254 putative DNA binding site [nucleotide binding]; other site 351605011255 dimerization interface [polypeptide binding]; other site 351605011256 putative Zn2+ binding site [ion binding]; other site 351605011257 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; pfam09860 351605011258 GIY-YIG domain of LuxR and ArsR family transcriptional regulators, and uncharacterized hypothetical proteins found in bacteria; Region: GIY-YIG_LuxR_like; cd10451 351605011259 GIY-YIG motif/motif A; other site 351605011260 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH4; cd08188 351605011261 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 351605011262 putative active site [active] 351605011263 metal binding site [ion binding]; metal-binding site 351605011264 PAS domain S-box; Region: sensory_box; TIGR00229 351605011265 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 351605011266 putative active site [active] 351605011267 heme pocket [chemical binding]; other site 351605011268 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 351605011269 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 351605011270 methylmalonyl-CoA decarboxylase; Provisional; Region: PRK11423 351605011271 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 351605011272 substrate binding site [chemical binding]; other site 351605011273 oxyanion hole (OAH) forming residues; other site 351605011274 trimer interface [polypeptide binding]; other site 351605011275 Protein of unknown function (DUF3553); Region: DUF3553; pfam12073 351605011276 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 351605011277 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 351605011278 putative catalytic cysteine [active] 351605011279 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 351605011280 GAF domain; Region: GAF; pfam01590 351605011281 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 351605011282 Walker A motif; other site 351605011283 ATP binding site [chemical binding]; other site 351605011284 Walker B motif; other site 351605011285 arginine finger; other site 351605011286 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 351605011287 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 351605011288 MPT binding site; other site 351605011289 trimer interface [polypeptide binding]; other site 351605011290 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 351605011291 trimer interface [polypeptide binding]; other site 351605011292 dimer interface [polypeptide binding]; other site 351605011293 putative active site [active] 351605011294 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 351605011295 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 351605011296 dimer interface [polypeptide binding]; other site 351605011297 putative functional site; other site 351605011298 putative MPT binding site; other site 351605011299 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 351605011300 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351605011301 Walker A/P-loop; other site 351605011302 ATP binding site [chemical binding]; other site 351605011303 Q-loop/lid; other site 351605011304 ABC transporter signature motif; other site 351605011305 Walker B; other site 351605011306 D-loop; other site 351605011307 H-loop/switch region; other site 351605011308 TOBE domain; Region: TOBE_2; pfam08402 351605011309 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 351605011310 dimer interface [polypeptide binding]; other site 351605011311 conserved gate region; other site 351605011312 putative PBP binding loops; other site 351605011313 ABC-ATPase subunit interface; other site 351605011314 ABC-type tungstate transport system, permease component [Coenzyme metabolism]; Region: TupB; COG2998 351605011315 PBP superfamily domain; Region: PBP_like_2; pfam12849 351605011316 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 351605011317 MoaE homodimer interface [polypeptide binding]; other site 351605011318 MoaD interaction [polypeptide binding]; other site 351605011319 active site residues [active] 351605011320 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 351605011321 Transcriptional regulator [Transcription]; Region: IclR; COG1414 351605011322 Bacterial transcriptional regulator; Region: IclR; pfam01614 351605011323 ThiS family; Region: ThiS; pfam02597 351605011324 charged pocket; other site 351605011325 hydrophobic patch; other site 351605011326 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; smart00790 351605011327 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 351605011328 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 351605011329 Uncharacterized conserved protein [Function unknown]; Region: COG3287 351605011330 FIST N domain; Region: FIST; pfam08495 351605011331 FIST C domain; Region: FIST_C; pfam10442 351605011332 mycofactocin system glycosyltransferase; Region: mycofact_glyco; TIGR03965 351605011333 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 351605011334 active site 351605011335 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 351605011336 Ligand Binding Site [chemical binding]; other site 351605011337 Electron transfer flavoprotein domain; Region: ETF; pfam01012 351605011338 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 351605011339 oxidoreductase; Provisional; Region: PRK10015 351605011340 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 351605011341 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 351605011342 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 351605011343 Old yellow enzyme (OYE)-related FMN binding domain, group 3. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_3_FMN; cd04734 351605011344 putative active site [active] 351605011345 putative FMN binding site [chemical binding]; other site 351605011346 putative substrate binding site [chemical binding]; other site 351605011347 putative catalytic residue [active] 351605011348 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 351605011349 mycofactocin radical SAM maturase; Region: mycofact_rSAM; TIGR03962 351605011350 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 351605011351 FeS/SAM binding site; other site 351605011352 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 351605011353 putative mycofactocin binding protein MftB; Region: mycofact_MftB; TIGR03967 351605011354 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 351605011355 Zn2+ binding site [ion binding]; other site 351605011356 Mg2+ binding site [ion binding]; other site 351605011357 Hemerythrin; Region: Hemerythrin; cd12107 351605011358 Fe binding site [ion binding]; other site 351605011359 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 351605011360 Zn2+ binding site [ion binding]; other site 351605011361 Mg2+ binding site [ion binding]; other site 351605011362 PAS domain; Region: PAS; smart00091 351605011363 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 351605011364 putative active site [active] 351605011365 heme pocket [chemical binding]; other site 351605011366 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 351605011367 putative active site [active] 351605011368 heme pocket [chemical binding]; other site 351605011369 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 351605011370 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 351605011371 putative active site [active] 351605011372 heme pocket [chemical binding]; other site 351605011373 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 351605011374 dimer interface [polypeptide binding]; other site 351605011375 phosphorylation site [posttranslational modification] 351605011376 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 351605011377 ATP binding site [chemical binding]; other site 351605011378 Mg2+ binding site [ion binding]; other site 351605011379 G-X-G motif; other site 351605011380 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 351605011381 MoxR-like ATPases [General function prediction only]; Region: COG0714 351605011382 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 351605011383 Walker A motif; other site 351605011384 ATP binding site [chemical binding]; other site 351605011385 Walker B motif; other site 351605011386 arginine finger; other site 351605011387 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 351605011388 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 351605011389 dimer interface [polypeptide binding]; other site 351605011390 active site 351605011391 metal binding site [ion binding]; metal-binding site 351605011392 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 351605011393 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 351605011394 FeS/SAM binding site; other site 351605011395 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 351605011396 MOSC domain; Region: MOSC; pfam03473 351605011397 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 351605011398 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 351605011399 FeS/SAM binding site; other site 351605011400 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 351605011401 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 351605011402 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605011403 active site 351605011404 phosphorylation site [posttranslational modification] 351605011405 intermolecular recognition site; other site 351605011406 dimerization interface [polypeptide binding]; other site 351605011407 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 351605011408 Walker A motif; other site 351605011409 ATP binding site [chemical binding]; other site 351605011410 Walker B motif; other site 351605011411 arginine finger; other site 351605011412 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 351605011413 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 351605011414 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 351605011415 putative active site [active] 351605011416 heme pocket [chemical binding]; other site 351605011417 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 351605011418 dimer interface [polypeptide binding]; other site 351605011419 phosphorylation site [posttranslational modification] 351605011420 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 351605011421 ATP binding site [chemical binding]; other site 351605011422 Mg2+ binding site [ion binding]; other site 351605011423 G-X-G motif; other site 351605011424 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH4; cd08188 351605011425 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 351605011426 putative active site [active] 351605011427 metal binding site [ion binding]; metal-binding site 351605011428 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 351605011429 Protein of unknown function (DUF4242); Region: DUF4242; pfam14026 351605011430 Uncharacterized conserved protein [Function unknown]; Region: COG1359 351605011431 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 351605011432 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 351605011433 Cysteine-rich domain; Region: CCG; pfam02754 351605011434 Cysteine-rich domain; Region: CCG; pfam02754 351605011435 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 351605011436 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 351605011437 4Fe-4S dicluster domain; Region: Fer4_18; pfam13746 351605011438 anaerobic sulfite reductase subunit A; Provisional; Region: PRK15055 351605011439 cytochrome-c3 hydrogenase subunit gamma; Provisional; Region: PRK08345 351605011440 Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is...; Region: sulfite_reductase_like; cd06221 351605011441 FAD binding pocket [chemical binding]; other site 351605011442 FAD binding motif [chemical binding]; other site 351605011443 phosphate binding motif [ion binding]; other site 351605011444 beta-alpha-beta structure motif; other site 351605011445 NAD binding pocket [chemical binding]; other site 351605011446 Iron coordination center [ion binding]; other site 351605011447 putative metalloenzyme radical SAM/SPASM domain maturase; Region: rSAM_Geo_metal; TIGR04311 351605011448 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 351605011449 FeS/SAM binding site; other site 351605011450 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 351605011451 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 351605011452 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 351605011453 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 351605011454 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 351605011455 active site 351605011456 catalytic site [active] 351605011457 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 351605011458 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 351605011459 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 351605011460 FeS/SAM binding site; other site 351605011461 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 351605011462 The (Largely Archaeal Putative) Hydrophobe/Amphiphile Efflux-3 (HAE3) Family; Region: 2A067; TIGR00921 351605011463 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 351605011464 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 351605011465 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 351605011466 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 351605011467 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 351605011468 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 351605011469 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 351605011470 Fic/DOC family; Region: Fic; pfam02661 351605011471 Fic/DOC family; Region: Fic; cl00960 351605011472 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 351605011473 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 351605011474 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N_2; pfam13588 351605011475 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 351605011476 Restriction endonuclease [Defense mechanisms]; Region: Mrr; COG1715 351605011477 Mrr N-terminal domain; Region: Mrr_N; pfam14338 351605011478 Restriction endonuclease; Region: Mrr_cat; pfam04471 351605011479 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 351605011480 salt bridge; other site 351605011481 non-specific DNA binding site [nucleotide binding]; other site 351605011482 sequence-specific DNA binding site [nucleotide binding]; other site 351605011483 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 351605011484 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 351605011485 active site 1 [active] 351605011486 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 351605011487 active site 351605011488 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 351605011489 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 351605011490 dimer interface [polypeptide binding]; other site 351605011491 active site 351605011492 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 351605011493 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 351605011494 NAD(P) binding site [chemical binding]; other site 351605011495 active site 351605011496 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 351605011497 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 351605011498 Radical SAM superfamily; Region: Radical_SAM; pfam04055 351605011499 FeS/SAM binding site; other site 351605011500 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 351605011501 active site 351605011502 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 351605011503 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 351605011504 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 351605011505 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 351605011506 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 351605011507 FeS/SAM binding site; other site 351605011508 Phosphopantetheine attachment site; Region: PP-binding; cl09936 351605011509 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 351605011510 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 351605011511 putative acyl-acceptor binding pocket; other site 351605011512 magnesium-protoporphyrin IX monomethyl ester anaerobic oxidative cyclase; Region: BchE; TIGR02026 351605011513 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 351605011514 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 351605011515 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 351605011516 FeS/SAM binding site; other site 351605011517 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 351605011518 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 351605011519 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 351605011520 Ligand binding site; other site 351605011521 Putative Catalytic site; other site 351605011522 DXD motif; other site 351605011523 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases and Helicobacter pylori peptidoglycan deacetylase (HpPgdA); Region: CE4_PuuE_HpPgdA_like_2; cd10941 351605011524 polysaccharide deacetylase family protein, PEP-CTERM locus subfamily; Region: pepcterm_polyde; TIGR03006 351605011525 putative active site [active] 351605011526 putative catalytic site [active] 351605011527 YceG-like family; Region: YceG; pfam02618 351605011528 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 351605011529 dimerization interface [polypeptide binding]; other site 351605011530 Response regulator receiver domain; Region: Response_reg; pfam00072 351605011531 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605011532 active site 351605011533 phosphorylation site [posttranslational modification] 351605011534 intermolecular recognition site; other site 351605011535 dimerization interface [polypeptide binding]; other site 351605011536 DnaJ domain; Region: DnaJ; pfam00226 351605011537 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 351605011538 TPR motif; other site 351605011539 binding surface 351605011540 hypothetical protein; Provisional; Region: PRK07550 351605011541 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 351605011542 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351605011543 homodimer interface [polypeptide binding]; other site 351605011544 catalytic residue [active] 351605011545 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 351605011546 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 351605011547 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 351605011548 membrane-bound complex binding site; other site 351605011549 hinge residues; other site 351605011550 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 351605011551 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 351605011552 dimerization interface [polypeptide binding]; other site 351605011553 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 351605011554 dimer interface [polypeptide binding]; other site 351605011555 phosphorylation site [posttranslational modification] 351605011556 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 351605011557 ATP binding site [chemical binding]; other site 351605011558 Mg2+ binding site [ion binding]; other site 351605011559 G-X-G motif; other site 351605011560 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 351605011561 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605011562 active site 351605011563 phosphorylation site [posttranslational modification] 351605011564 intermolecular recognition site; other site 351605011565 dimerization interface [polypeptide binding]; other site 351605011566 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 351605011567 Walker A motif; other site 351605011568 ATP binding site [chemical binding]; other site 351605011569 Walker B motif; other site 351605011570 arginine finger; other site 351605011571 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 351605011572 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 351605011573 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 351605011574 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 351605011575 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 351605011576 Protein of unknown function (DUF3374); Region: DUF3374; pfam11854 351605011577 DDE superfamily endonuclease; Region: DDE_5; pfam13546 351605011578 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 351605011579 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 351605011580 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 351605011581 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 351605011582 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 351605011583 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 351605011584 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 351605011585 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 351605011586 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 351605011587 DnaA box-binding interface [nucleotide binding]; other site 351605011588 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 351605011589 Protein of unknown function (DUF3175); Region: DUF3175; pfam11373 351605011590 Predicted permease [General function prediction only]; Region: COG2985 351605011591 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 351605011592 TrkA-C domain; Region: TrkA_C; pfam02080 351605011593 TrkA-C domain; Region: TrkA_C; pfam02080 351605011594 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 351605011595 Predicted integral membrane protein (DUF2269); Region: DUF2269; pfam10027 351605011596 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 351605011597 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 351605011598 catalytic loop [active] 351605011599 iron binding site [ion binding]; other site 351605011600 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 351605011601 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 351605011602 molybdopterin cofactor binding site; other site 351605011603 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 351605011604 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 351605011605 glutamate synthase (NADPH), homotetrameric; Region: gltA; TIGR01316 351605011606 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 351605011607 Protein of unknown function (DUF342); Region: DUF342; pfam03961 351605011608 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 351605011609 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 351605011610 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 351605011611 CoA-binding site [chemical binding]; other site 351605011612 ATP-binding [chemical binding]; other site 351605011613 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 351605011614 Transcriptional regulator [Transcription]; Region: IclR; COG1414 351605011615 Bacterial transcriptional regulator; Region: IclR; pfam01614 351605011616 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 351605011617 Ligand Binding Site [chemical binding]; other site 351605011618 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 351605011619 dimerization interface [polypeptide binding]; other site 351605011620 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 351605011621 dimer interface [polypeptide binding]; other site 351605011622 phosphorylation site [posttranslational modification] 351605011623 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 351605011624 ATP binding site [chemical binding]; other site 351605011625 Mg2+ binding site [ion binding]; other site 351605011626 G-X-G motif; other site 351605011627 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 351605011628 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605011629 active site 351605011630 phosphorylation site [posttranslational modification] 351605011631 intermolecular recognition site; other site 351605011632 dimerization interface [polypeptide binding]; other site 351605011633 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 351605011634 Walker A motif; other site 351605011635 ATP binding site [chemical binding]; other site 351605011636 Walker B motif; other site 351605011637 arginine finger; other site 351605011638 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 351605011639 Response regulator receiver domain; Region: Response_reg; pfam00072 351605011640 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605011641 active site 351605011642 phosphorylation site [posttranslational modification] 351605011643 intermolecular recognition site; other site 351605011644 dimerization interface [polypeptide binding]; other site 351605011645 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 351605011646 heme-binding residues [chemical binding]; other site 351605011647 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 351605011648 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 351605011649 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 351605011650 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 351605011651 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 351605011652 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 351605011653 HAMP domain; Region: HAMP; pfam00672 351605011654 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 351605011655 thiS-thiF/thiG interaction site; other site 351605011656 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 351605011657 ThiS interaction site; other site 351605011658 putative active site [active] 351605011659 tetramer interface [polypeptide binding]; other site 351605011660 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 351605011661 thiamine phosphate binding site [chemical binding]; other site 351605011662 active site 351605011663 pyrophosphate binding site [ion binding]; other site 351605011664 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 351605011665 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 351605011666 FeS/SAM binding site; other site 351605011667 Divergent AAA domain; Region: AAA_4; pfam04326 351605011668 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 351605011669 ORF6N domain; Region: ORF6N; pfam10543 351605011670 Transposase, Mutator family; Region: Transposase_mut; pfam00872 351605011671 MULE transposase domain; Region: MULE; pfam10551 351605011672 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 351605011673 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 351605011674 Protein of unknown function (DUF327); Region: DUF327; pfam03885 351605011675 Radical SAM superfamily; Region: Radical_SAM; pfam04055 351605011676 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 351605011677 FeS/SAM binding site; other site 351605011678 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 351605011679 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 351605011680 DNA-binding site [nucleotide binding]; DNA binding site 351605011681 RNA-binding motif; other site 351605011682 pyruvate phosphate dikinase; Provisional; Region: PRK09279 351605011683 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 351605011684 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 351605011685 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 351605011686 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 351605011687 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 351605011688 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 351605011689 dimer interface [polypeptide binding]; other site 351605011690 motif 1; other site 351605011691 active site 351605011692 motif 2; other site 351605011693 motif 3; other site 351605011694 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 351605011695 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 351605011696 DNA binding site [nucleotide binding] 351605011697 catalytic residue [active] 351605011698 H2TH interface [polypeptide binding]; other site 351605011699 putative catalytic residues [active] 351605011700 turnover-facilitating residue; other site 351605011701 intercalation triad [nucleotide binding]; other site 351605011702 8OG recognition residue [nucleotide binding]; other site 351605011703 putative reading head residues; other site 351605011704 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 351605011705 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 351605011706 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 351605011707 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 351605011708 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 351605011709 Predicted membrane protein (DUF2232); Region: DUF2232; pfam09991 351605011710 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 351605011711 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 351605011712 GTP-binding protein YchF; Reviewed; Region: PRK09601 351605011713 YchF GTPase; Region: YchF; cd01900 351605011714 G1 box; other site 351605011715 GTP/Mg2+ binding site [chemical binding]; other site 351605011716 Switch I region; other site 351605011717 G2 box; other site 351605011718 Switch II region; other site 351605011719 G3 box; other site 351605011720 G4 box; other site 351605011721 G5 box; other site 351605011722 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 351605011723 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 351605011724 putative active site [active] 351605011725 catalytic residue [active] 351605011726 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 351605011727 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 351605011728 5S rRNA interface [nucleotide binding]; other site 351605011729 CTC domain interface [polypeptide binding]; other site 351605011730 L16 interface [polypeptide binding]; other site 351605011731 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 351605011732 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 351605011733 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 351605011734 active site 351605011735 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14614 351605011736 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 351605011737 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 351605011738 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 351605011739 active site clefts [active] 351605011740 zinc binding site [ion binding]; other site 351605011741 dimer interface [polypeptide binding]; other site 351605011742 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 351605011743 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 351605011744 catalytic residue [active] 351605011745 Maf-like protein; Region: Maf; pfam02545 351605011746 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 351605011747 active site 351605011748 dimer interface [polypeptide binding]; other site 351605011749 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 351605011750 Glucose inhibited division protein A; Region: GIDA; pfam01134 351605011751 DNA topoisomerase I; Validated; Region: PRK06599 351605011752 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 351605011753 active site 351605011754 interdomain interaction site; other site 351605011755 putative metal-binding site [ion binding]; other site 351605011756 nucleotide binding site [chemical binding]; other site 351605011757 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 351605011758 domain I; other site 351605011759 DNA binding groove [nucleotide binding] 351605011760 phosphate binding site [ion binding]; other site 351605011761 domain II; other site 351605011762 domain III; other site 351605011763 nucleotide binding site [chemical binding]; other site 351605011764 catalytic site [active] 351605011765 domain IV; other site 351605011766 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 351605011767 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 351605011768 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 351605011769 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 351605011770 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 351605011771 DNA protecting protein DprA; Region: dprA; TIGR00732 351605011772 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 351605011773 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 351605011774 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 351605011775 TPR motif; other site 351605011776 binding surface 351605011777 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 351605011778 Peptidase family U32; Region: Peptidase_U32; pfam01136 351605011779 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 351605011780 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 351605011781 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 351605011782 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 351605011783 inhibitor-cofactor binding pocket; inhibition site 351605011784 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351605011785 catalytic residue [active] 351605011786 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 351605011787 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 351605011788 Ligand binding site; other site 351605011789 Putative Catalytic site; other site 351605011790 DXD motif; other site 351605011791 putative formyltransferase; Provisional; Region: PRK06988 351605011792 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 351605011793 active site 351605011794 substrate binding site [chemical binding]; other site 351605011795 cosubstrate binding site; other site 351605011796 catalytic site [active] 351605011797 C-terminal subdomain of the formyltransferase domain on ArnA, which modifies lipid A with 4-amino-4-deoxy-l-arabinose; Region: Arna_FMT_C; cd08702 351605011798 active site 351605011799 hexamer interface [polypeptide binding]; other site 351605011800 NAD-dependent epimerase/dehydratase family protein; Provisional; Region: PRK11908 351605011801 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 351605011802 NAD(P) binding site [chemical binding]; other site 351605011803 active site 351605011804 Catalytic domain of Escherichia coli 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD and other bacterial homologs; Region: CE4_ArnD; cd10939 351605011805 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 351605011806 putative active site [active] 351605011807 putative catalytic site [active] 351605011808 putative Zn binding site [ion binding]; other site 351605011809 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 351605011810 Protein of unknown function (DUF422); Region: DUF422; cl00991 351605011811 Transposase, Mutator family; Region: Transposase_mut; pfam00872 351605011812 MULE transposase domain; Region: MULE; pfam10551 351605011813 Transposase, Mutator family; Region: Transposase_mut; pfam00872 351605011814 MULE transposase domain; Region: MULE; pfam10551 351605011815 mce related protein; Region: MCE; pfam02470 351605011816 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 351605011817 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 351605011818 Permease; Region: Permease; pfam02405 351605011819 3-isopropylmalate dehydratase, small subunit; Region: leuD; TIGR00171 351605011820 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 351605011821 substrate binding site [chemical binding]; other site 351605011822 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 351605011823 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 351605011824 substrate binding site [chemical binding]; other site 351605011825 ligand binding site [chemical binding]; other site 351605011826 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 351605011827 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 351605011828 DNA-binding site [nucleotide binding]; DNA binding site 351605011829 RNA-binding motif; other site 351605011830 2-isopropylmalate synthase; Validated; Region: PRK00915 351605011831 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 351605011832 active site 351605011833 catalytic residues [active] 351605011834 metal binding site [ion binding]; metal-binding site 351605011835 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 351605011836 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 351605011837 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 351605011838 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 351605011839 ketol-acid reductoisomerase; Provisional; Region: PRK05479 351605011840 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 351605011841 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 351605011842 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 351605011843 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 351605011844 putative valine binding site [chemical binding]; other site 351605011845 dimer interface [polypeptide binding]; other site 351605011846 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 351605011847 acetolactate synthase 3 catalytic subunit; Reviewed; Region: PRK06048 351605011848 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 351605011849 PYR/PP interface [polypeptide binding]; other site 351605011850 dimer interface [polypeptide binding]; other site 351605011851 TPP binding site [chemical binding]; other site 351605011852 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 351605011853 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 351605011854 TPP-binding site [chemical binding]; other site 351605011855 dimer interface [polypeptide binding]; other site 351605011856 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 351605011857 6-phosphogluconate dehydratase; Region: edd; TIGR01196 351605011858 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 351605011859 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 351605011860 Interdomain contacts; other site 351605011861 Cytokine receptor motif; other site 351605011862 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 351605011863 Interdomain contacts; other site 351605011864 Cytokine receptor motif; other site 351605011865 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 351605011866 Interdomain contacts; other site 351605011867 Cytokine receptor motif; other site 351605011868 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 351605011869 Seven times multi-haem cytochrome CxxCH; Region: Multi-haem_cyto; pfam13447 351605011870 Geobacter sulfurreducens CxxxxCH...CXXCH domain; Region: GSu_C4xC__C2xCH; TIGR01904 351605011871 Geobacter CxxxxCH...CXXCH motif (GSu_C4xC__C2xCH); Region: GSu_C4xC__C2xCH; pfam09698 351605011872 Geobacter CxxxxCH...CXXCH motif (GSu_C4xC__C2xCH); Region: GSu_C4xC__C2xCH; pfam09698 351605011873 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 351605011874 Glycoprotease family; Region: Peptidase_M22; pfam00814 351605011875 RIP metalloprotease RseP; Region: TIGR00054 351605011876 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 351605011877 active site 351605011878 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 351605011879 protein binding site [polypeptide binding]; other site 351605011880 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 351605011881 putative substrate binding region [chemical binding]; other site 351605011882 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 351605011883 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 351605011884 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 351605011885 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 351605011886 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 351605011887 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 351605011888 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14830 351605011889 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 351605011890 catalytic residue [active] 351605011891 putative FPP diphosphate binding site; other site 351605011892 putative FPP binding hydrophobic cleft; other site 351605011893 dimer interface [polypeptide binding]; other site 351605011894 putative IPP diphosphate binding site; other site 351605011895 ribosome recycling factor; Reviewed; Region: frr; PRK00083 351605011896 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 351605011897 hinge region; other site 351605011898 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 351605011899 putative nucleotide binding site [chemical binding]; other site 351605011900 uridine monophosphate binding site [chemical binding]; other site 351605011901 homohexameric interface [polypeptide binding]; other site 351605011902 elongation factor Ts; Reviewed; Region: tsf; PRK12332 351605011903 UBA/TS-N domain; Region: UBA; pfam00627 351605011904 Elongation factor TS; Region: EF_TS; pfam00889 351605011905 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 351605011906 rRNA interaction site [nucleotide binding]; other site 351605011907 S8 interaction site; other site 351605011908 putative laminin-1 binding site; other site 351605011909 Predicted permeases [General function prediction only]; Region: COG0795 351605011910 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 351605011911 Predicted permeases [General function prediction only]; Region: COG0795 351605011912 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 351605011913 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cl15674 351605011914 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 351605011915 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 351605011916 active site 351605011917 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 351605011918 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 351605011919 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 351605011920 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 351605011921 catalytic residues [active] 351605011922 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 351605011923 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605011924 active site 351605011925 phosphorylation site [posttranslational modification] 351605011926 intermolecular recognition site; other site 351605011927 dimerization interface [polypeptide binding]; other site 351605011928 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 351605011929 Walker A motif; other site 351605011930 ATP binding site [chemical binding]; other site 351605011931 Walker B motif; other site 351605011932 arginine finger; other site 351605011933 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 351605011934 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 351605011935 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 351605011936 dimer interface [polypeptide binding]; other site 351605011937 phosphorylation site [posttranslational modification] 351605011938 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 351605011939 ATP binding site [chemical binding]; other site 351605011940 Mg2+ binding site [ion binding]; other site 351605011941 G-X-G motif; other site 351605011942 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 351605011943 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 351605011944 substrate binding pocket [chemical binding]; other site 351605011945 chain length determination region; other site 351605011946 substrate-Mg2+ binding site; other site 351605011947 catalytic residues [active] 351605011948 aspartate-rich region 1; other site 351605011949 active site lid residues [active] 351605011950 aspartate-rich region 2; other site 351605011951 Response regulator receiver domain; Region: Response_reg; pfam00072 351605011952 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605011953 active site 351605011954 phosphorylation site [posttranslational modification] 351605011955 intermolecular recognition site; other site 351605011956 dimerization interface [polypeptide binding]; other site 351605011957 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 351605011958 GAF domain; Region: GAF_2; pfam13185 351605011959 GAF domain; Region: GAF_3; pfam13492 351605011960 GAF domain; Region: GAF_2; pfam13185 351605011961 GAF domain; Region: GAF; pfam01590 351605011962 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351605011963 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351605011964 metal binding site [ion binding]; metal-binding site 351605011965 active site 351605011966 I-site; other site 351605011967 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 351605011968 non-specific DNA binding site [nucleotide binding]; other site 351605011969 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 351605011970 salt bridge; other site 351605011971 sequence-specific DNA binding site [nucleotide binding]; other site 351605011972 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 351605011973 Catalytic site [active] 351605011974 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 351605011975 mercuric reductase; Validated; Region: PRK06370 351605011976 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 351605011977 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 351605011978 Uncharacterized conserved protein [Function unknown]; Region: COG0398 351605011979 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 351605011980 radical SAM/Cys-rich domain protein; Region: rSAM_SeCys; TIGR04167 351605011981 Protein of unknown function (DUF3641); Region: DUF3641; pfam12345 351605011982 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14096 351605011983 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 351605011984 active site 351605011985 dimer interface [polypeptide binding]; other site 351605011986 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 351605011987 dimer interface [polypeptide binding]; other site 351605011988 active site 351605011989 Predicted methyltransferases [General function prediction only]; Region: COG0313 351605011990 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 351605011991 putative SAM binding site [chemical binding]; other site 351605011992 putative homodimer interface [polypeptide binding]; other site 351605011993 NAD synthetase; Provisional; Region: PRK13980 351605011994 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 351605011995 homodimer interface [polypeptide binding]; other site 351605011996 NAD binding pocket [chemical binding]; other site 351605011997 ATP binding pocket [chemical binding]; other site 351605011998 Mg binding site [ion binding]; other site 351605011999 active-site loop [active] 351605012000 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_8; cd07586 351605012001 putative active site [active] 351605012002 catalytic triad [active] 351605012003 putative dimer interface [polypeptide binding]; other site 351605012004 hypothetical protein; Provisional; Region: PRK14675 351605012005 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 351605012006 RNA/DNA hybrid binding site [nucleotide binding]; other site 351605012007 active site 351605012008 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 351605012009 SAM-dependent RNA methyltransferase; Region: Methyltrn_RNA_4; pfam09936 351605012010 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 351605012011 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 351605012012 RimM N-terminal domain; Region: RimM; pfam01782 351605012013 PRC-barrel domain; Region: PRC; pfam05239 351605012014 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 351605012015 KH domain; Region: KH_4; pfam13083 351605012016 G-X-X-G motif; other site 351605012017 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 351605012018 signal recognition particle protein; Provisional; Region: PRK10867 351605012019 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 351605012020 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 351605012021 P loop; other site 351605012022 GTP binding site [chemical binding]; other site 351605012023 Signal peptide binding domain; Region: SRP_SPB; pfam02978 351605012024 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 351605012025 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 351605012026 CPxP motif; other site 351605012027 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 351605012028 Protein of unknown function (DUF721); Region: DUF721; pfam05258 351605012029 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 351605012030 Ligand binding site; other site 351605012031 Putative Catalytic site; other site 351605012032 DXD motif; other site 351605012033 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 351605012034 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 351605012035 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 351605012036 S-adenosylmethionine binding site [chemical binding]; other site 351605012037 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 351605012038 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 351605012039 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 351605012040 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 351605012041 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 351605012042 putative active site [active] 351605012043 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 351605012044 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 351605012045 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 351605012046 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 351605012047 Probable Catalytic site; other site 351605012048 metal-binding site 351605012049 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 351605012050 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 351605012051 NADP-binding site; other site 351605012052 homotetramer interface [polypeptide binding]; other site 351605012053 substrate binding site [chemical binding]; other site 351605012054 homodimer interface [polypeptide binding]; other site 351605012055 active site 351605012056 Methyltransferase domain; Region: Methyltransf_23; pfam13489 351605012057 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 351605012058 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 351605012059 This family is most closely related to the GT1 family of glycosyltransferases. wcfI in Bacteroides fragilis has been shown to be involved in the capsular polysaccharide biosynthesis; Region: GT1_wcfI_like; cd03825 351605012060 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 351605012061 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 351605012062 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 351605012063 active site 351605012064 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cd12082 351605012065 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 351605012066 CDP-tyvelose 2-epimerase, extended (e) SDRs; Region: CDP_TE_SDR_e; cd05258 351605012067 dTDP-glucose 4,6-dehydratase; Region: dTDP_gluc_dehyt; TIGR01181 351605012068 NAD binding site [chemical binding]; other site 351605012069 homotetramer interface [polypeptide binding]; other site 351605012070 homodimer interface [polypeptide binding]; other site 351605012071 active site 351605012072 substrate binding site [chemical binding]; other site 351605012073 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 351605012074 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 351605012075 NAD(P) binding site [chemical binding]; other site 351605012076 active site 351605012077 lipopolysaccharide biosynthesis protein RfbH; Provisional; Region: PRK15407 351605012078 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 351605012079 inhibitor-cofactor binding pocket; inhibition site 351605012080 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351605012081 catalytic residue [active] 351605012082 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 351605012083 CDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: CDP_GD_SDR_e; cd05252 351605012084 NAD binding site [chemical binding]; other site 351605012085 homotetramer interface [polypeptide binding]; other site 351605012086 homodimer interface [polypeptide binding]; other site 351605012087 substrate binding site [chemical binding]; other site 351605012088 active site 351605012089 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 351605012090 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 351605012091 substrate binding site; other site 351605012092 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; cl17220 351605012093 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 351605012094 Ligand binding site; other site 351605012095 Putative Catalytic site; other site 351605012096 DXD motif; other site 351605012097 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 351605012098 TPR repeat; Region: TPR_11; pfam13414 351605012099 binding surface 351605012100 TPR motif; other site 351605012101 Tetratricopeptide repeat; Region: TPR_12; pfam13424 351605012102 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 351605012103 binding surface 351605012104 TPR motif; other site 351605012105 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 351605012106 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 351605012107 Probable Catalytic site; other site 351605012108 metal-binding site 351605012109 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 351605012110 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 351605012111 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 351605012112 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 351605012113 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 351605012114 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 351605012115 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 351605012116 metal-binding site 351605012117 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 351605012118 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 351605012119 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 351605012120 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 351605012121 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 351605012122 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 351605012123 NADP-binding site; other site 351605012124 homotetramer interface [polypeptide binding]; other site 351605012125 substrate binding site [chemical binding]; other site 351605012126 homodimer interface [polypeptide binding]; other site 351605012127 active site 351605012128 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 351605012129 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 351605012130 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 351605012131 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 351605012132 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 351605012133 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 351605012134 Glycosyltransferase like family; Region: Glyco_tranf_2_5; pfam13712 351605012135 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 351605012136 Probable Catalytic site; other site 351605012137 metal-binding site 351605012138 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 351605012139 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 351605012140 metal-binding site 351605012141 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 351605012142 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 351605012143 metal-binding site 351605012144 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 351605012145 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 351605012146 metal-binding site 351605012147 Methyltransferase FkbM domain; Region: Methyltransf_21; cl17387 351605012148 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 351605012149 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 351605012150 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 351605012151 putative active site [active] 351605012152 Methyltransferase domain; Region: Methyltransf_23; pfam13489 351605012153 Methyltransferase domain; Region: Methyltransf_11; pfam08241 351605012154 S-adenosylmethionine binding site [chemical binding]; other site 351605012155 Methyltransferase domain; Region: Methyltransf_31; pfam13847 351605012156 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 351605012157 S-adenosylmethionine binding site [chemical binding]; other site 351605012158 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 351605012159 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 351605012160 sulfotransferase; Region: PLN02164 351605012161 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 351605012162 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 351605012163 Walker A/P-loop; other site 351605012164 ATP binding site [chemical binding]; other site 351605012165 Q-loop/lid; other site 351605012166 ABC transporter signature motif; other site 351605012167 Walker B; other site 351605012168 D-loop; other site 351605012169 H-loop/switch region; other site 351605012170 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 351605012171 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 351605012172 PemK-like protein; Region: PemK; pfam02452 351605012173 Protein of unknown function (DUF2281); Region: DUF2281; cl02355 351605012174 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 351605012175 four helix bundle protein; Region: TIGR02436 351605012176 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 351605012177 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 351605012178 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 351605012179 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 351605012180 non-specific DNA binding site [nucleotide binding]; other site 351605012181 salt bridge; other site 351605012182 sequence-specific DNA binding site [nucleotide binding]; other site 351605012183 Transposase; Region: HTH_Tnp_1; cl17663 351605012184 Homeodomain-like domain; Region: HTH_32; pfam13565 351605012185 Integrase core domain; Region: rve; pfam00665 351605012186 Integrase core domain; Region: rve_3; pfam13683 351605012187 Homeodomain-like domain; Region: HTH_23; pfam13384 351605012188 Winged helix-turn helix; Region: HTH_29; pfam13551 351605012189 Integrase core domain; Region: rve; pfam00665 351605012190 Integrase core domain; Region: rve_3; cl15866 351605012191 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 351605012192 four helix bundle protein; Region: TIGR02436 351605012193 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07764 351605012194 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 351605012195 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 351605012196 G1 box; other site 351605012197 putative GEF interaction site [polypeptide binding]; other site 351605012198 GTP/Mg2+ binding site [chemical binding]; other site 351605012199 Switch I region; other site 351605012200 G2 box; other site 351605012201 CysD dimerization site [polypeptide binding]; other site 351605012202 G3 box; other site 351605012203 Switch II region; other site 351605012204 G4 box; other site 351605012205 G5 box; other site 351605012206 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 351605012207 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 351605012208 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 351605012209 active site 351605012210 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 351605012211 four helix bundle protein; Region: TIGR02436 351605012212 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 351605012213 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 351605012214 Active Sites [active] 351605012215 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 351605012216 ligand-binding site [chemical binding]; other site 351605012217 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 351605012218 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 351605012219 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 351605012220 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 351605012221 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 351605012222 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 351605012223 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 351605012224 Ligand binding site; other site 351605012225 Putative Catalytic site; other site 351605012226 DXD motif; other site 351605012227 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 351605012228 active site 351605012229 NHL repeat; Region: NHL; pfam01436 351605012230 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 351605012231 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 351605012232 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 351605012233 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 351605012234 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 351605012235 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 351605012236 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 351605012237 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 351605012238 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 351605012239 ResB-like family; Region: ResB; pfam05140 351605012240 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 351605012241 heme-binding residues [chemical binding]; other site 351605012242 AIR carboxylase; Region: AIRC; pfam00731 351605012243 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 351605012244 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 351605012245 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 351605012246 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 351605012247 Uncharacterized conserved protein [Function unknown]; Region: COG3391 351605012248 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 351605012249 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 351605012250 CARDB; Region: CARDB; pfam07705 351605012251 CARDB; Region: CARDB; pfam07705 351605012252 CARDB; Region: CARDB; pfam07705 351605012253 CARDB; Region: CARDB; pfam07705 351605012254 CARDB; Region: CARDB; pfam07705 351605012255 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 351605012256 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 351605012257 purine monophosphate binding site [chemical binding]; other site 351605012258 dimer interface [polypeptide binding]; other site 351605012259 putative catalytic residues [active] 351605012260 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 351605012261 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 351605012262 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 351605012263 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 351605012264 dimerization interface [polypeptide binding]; other site 351605012265 putative ATP binding site [chemical binding]; other site 351605012266 alanine racemase; Reviewed; Region: alr; PRK00053 351605012267 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 351605012268 active site 351605012269 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 351605012270 dimer interface [polypeptide binding]; other site 351605012271 substrate binding site [chemical binding]; other site 351605012272 catalytic residues [active] 351605012273 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 351605012274 thiamine phosphate binding site [chemical binding]; other site 351605012275 active site 351605012276 pyrophosphate binding site [ion binding]; other site 351605012277 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 351605012278 dimer interface [polypeptide binding]; other site 351605012279 substrate binding site [chemical binding]; other site 351605012280 ATP binding site [chemical binding]; other site 351605012281 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 351605012282 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 351605012283 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 351605012284 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 351605012285 homodimer interface [polypeptide binding]; other site 351605012286 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 351605012287 active site pocket [active] 351605012288 cystathionine beta-lyase; Provisional; Region: PRK08064 351605012289 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 351605012290 homodimer interface [polypeptide binding]; other site 351605012291 substrate-cofactor binding pocket; other site 351605012292 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351605012293 catalytic residue [active] 351605012294 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 351605012295 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 351605012296 homodimer interface [polypeptide binding]; other site 351605012297 substrate-cofactor binding pocket; other site 351605012298 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351605012299 catalytic residue [active] 351605012300 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 351605012301 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 351605012302 dimer interface [polypeptide binding]; other site 351605012303 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351605012304 catalytic residue [active] 351605012305 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 351605012306 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 351605012307 ligand binding site [chemical binding]; other site 351605012308 NAD binding site [chemical binding]; other site 351605012309 dimerization interface [polypeptide binding]; other site 351605012310 catalytic site [active] 351605012311 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 351605012312 putative L-serine binding site [chemical binding]; other site 351605012313 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 351605012314 Major Facilitator Superfamily; Region: MFS_1; pfam07690 351605012315 putative substrate translocation pore; other site 351605012316 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: VapC; COG1487 351605012317 putative active site [active] 351605012318 Uncharacterized protein conserved in bacteria (DUF2191); Region: DUF2191; pfam09957 351605012319 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 351605012320 oligomeric interface; other site 351605012321 putative active site [active] 351605012322 homodimer interface [polypeptide binding]; other site 351605012323 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 351605012324 PIN domain; Region: PIN_3; pfam13470 351605012325 HicB family; Region: HicB; pfam05534 351605012326 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 351605012327 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 351605012328 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 351605012329 Walker A/P-loop; other site 351605012330 ATP binding site [chemical binding]; other site 351605012331 Q-loop/lid; other site 351605012332 ABC transporter signature motif; other site 351605012333 Walker B; other site 351605012334 D-loop; other site 351605012335 H-loop/switch region; other site 351605012336 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 351605012337 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 351605012338 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351605012339 Walker A/P-loop; other site 351605012340 ATP binding site [chemical binding]; other site 351605012341 Q-loop/lid; other site 351605012342 ABC transporter signature motif; other site 351605012343 Walker B; other site 351605012344 D-loop; other site 351605012345 H-loop/switch region; other site 351605012346 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 351605012347 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 351605012348 substrate binding pocket [chemical binding]; other site 351605012349 membrane-bound complex binding site; other site 351605012350 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 351605012351 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 351605012352 dimer interface [polypeptide binding]; other site 351605012353 conserved gate region; other site 351605012354 putative PBP binding loops; other site 351605012355 ABC-ATPase subunit interface; other site 351605012356 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 351605012357 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 351605012358 Walker A/P-loop; other site 351605012359 ATP binding site [chemical binding]; other site 351605012360 Q-loop/lid; other site 351605012361 ABC transporter signature motif; other site 351605012362 Walker B; other site 351605012363 D-loop; other site 351605012364 H-loop/switch region; other site 351605012365 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 351605012366 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 351605012367 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 351605012368 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 351605012369 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 351605012370 Ubiquitin-like proteins; Region: UBQ; cl00155 351605012371 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 351605012372 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 351605012373 Walker A/P-loop; other site 351605012374 ATP binding site [chemical binding]; other site 351605012375 Q-loop/lid; other site 351605012376 ABC transporter signature motif; other site 351605012377 Walker B; other site 351605012378 D-loop; other site 351605012379 H-loop/switch region; other site 351605012380 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 351605012381 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 351605012382 dimer interface [polypeptide binding]; other site 351605012383 conserved gate region; other site 351605012384 putative PBP binding loops; other site 351605012385 ABC-ATPase subunit interface; other site 351605012386 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 351605012387 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 351605012388 dimer interface [polypeptide binding]; other site 351605012389 conserved gate region; other site 351605012390 putative PBP binding loops; other site 351605012391 ABC-ATPase subunit interface; other site 351605012392 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 351605012393 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 351605012394 S-adenosylmethionine binding site [chemical binding]; other site 351605012395 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 351605012396 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 351605012397 membrane-bound complex binding site; other site 351605012398 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; cl03075 351605012399 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 351605012400 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 351605012401 putative active site [active] 351605012402 putative NTP binding site [chemical binding]; other site 351605012403 putative nucleic acid binding site [nucleotide binding]; other site 351605012404 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 351605012405 nitrogenase iron protein; Region: nifH; TIGR01287 351605012406 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 351605012407 Uncharacterized small protein (DUF2292); Region: DUF2292; pfam10055 351605012408 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 351605012409 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 351605012410 Walker A/P-loop; other site 351605012411 ATP binding site [chemical binding]; other site 351605012412 Q-loop/lid; other site 351605012413 ABC transporter signature motif; other site 351605012414 Walker B; other site 351605012415 D-loop; other site 351605012416 H-loop/switch region; other site 351605012417 TOBE-like domain; Region: TOBE_3; pfam12857 351605012418 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 351605012419 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 351605012420 dimer interface [polypeptide binding]; other site 351605012421 conserved gate region; other site 351605012422 putative PBP binding loops; other site 351605012423 ABC-ATPase subunit interface; other site 351605012424 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 351605012425 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 351605012426 dimer interface [polypeptide binding]; other site 351605012427 conserved gate region; other site 351605012428 putative PBP binding loops; other site 351605012429 ABC-ATPase subunit interface; other site 351605012430 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 351605012431 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 351605012432 Predicted transcriptional regulator [Transcription]; Region: COG1959 351605012433 Transcriptional regulator; Region: Rrf2; pfam02082 351605012434 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 351605012435 Smr domain; Region: Smr; pfam01713 351605012436 Adhesion protein FadA; Region: FadA; pfam09403 351605012437 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 351605012438 ligand binding site [chemical binding]; other site 351605012439 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 351605012440 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 351605012441 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 351605012442 Walker A motif; other site 351605012443 ATP binding site [chemical binding]; other site 351605012444 Walker B motif; other site 351605012445 HDOD domain; Region: HDOD; pfam08668 351605012446 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 351605012447 PilZ domain; Region: PilZ; pfam07238 351605012448 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351605012449 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351605012450 metal binding site [ion binding]; metal-binding site 351605012451 active site 351605012452 I-site; other site 351605012453 DNA polymerase I; Provisional; Region: PRK05755 351605012454 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 351605012455 active site 351605012456 metal binding site 1 [ion binding]; metal-binding site 351605012457 putative 5' ssDNA interaction site; other site 351605012458 metal binding site 3; metal-binding site 351605012459 metal binding site 2 [ion binding]; metal-binding site 351605012460 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 351605012461 putative DNA binding site [nucleotide binding]; other site 351605012462 putative metal binding site [ion binding]; other site 351605012463 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 351605012464 active site 351605012465 catalytic site [active] 351605012466 substrate binding site [chemical binding]; other site 351605012467 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 351605012468 active site 351605012469 DNA binding site [nucleotide binding] 351605012470 catalytic site [active] 351605012471 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 351605012472 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 351605012473 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 351605012474 putative dimer interface [polypeptide binding]; other site 351605012475 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 351605012476 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 351605012477 Ligand Binding Site [chemical binding]; other site 351605012478 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 351605012479 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 351605012480 dimer interface [polypeptide binding]; other site 351605012481 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351605012482 catalytic residue [active] 351605012483 Transcriptional regulator; Region: Rrf2; cl17282 351605012484 Rrf2 family protein; Region: rrf2_super; TIGR00738 351605012485 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 351605012486 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 351605012487 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 351605012488 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 351605012489 nucleotide binding site/active site [active] 351605012490 HIT family signature motif; other site 351605012491 catalytic residue [active] 351605012492 Transposase IS200 like; Region: Y1_Tnp; pfam01797 351605012493 endonuclease IV; Provisional; Region: PRK01060 351605012494 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 351605012495 AP (apurinic/apyrimidinic) site pocket; other site 351605012496 DNA interaction; other site 351605012497 Metal-binding active site; metal-binding site 351605012498 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 351605012499 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 351605012500 Transposase, Mutator family; Region: Transposase_mut; pfam00872 351605012501 MULE transposase domain; Region: MULE; pfam10551 351605012502 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 351605012503 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 351605012504 putative active site [active] 351605012505 putative NTP binding site [chemical binding]; other site 351605012506 putative nucleic acid binding site [nucleotide binding]; other site 351605012507 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 351605012508 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 351605012509 active site residue [active] 351605012510 membrane protein; Provisional; Region: PRK14393 351605012511 PilZ domain; Region: PilZ; pfam07238 351605012512 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 351605012513 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 351605012514 Fic/DOC family; Region: Fic; pfam02661 351605012515 Transposase IS200 like; Region: Y1_Tnp; pfam01797 351605012516 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 351605012517 DnaA box-binding interface [nucleotide binding]; other site 351605012518 Homeodomain-like domain; Region: HTH_32; pfam13565 351605012519 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 351605012520 Integrase core domain; Region: rve; pfam00665 351605012521 Integrase core domain; Region: rve_3; pfam13683 351605012522 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 351605012523 non-specific DNA binding site [nucleotide binding]; other site 351605012524 salt bridge; other site 351605012525 sequence-specific DNA binding site [nucleotide binding]; other site 351605012526 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 351605012527 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 351605012528 CysD dimerization site [polypeptide binding]; other site 351605012529 G1 box; other site 351605012530 putative GEF interaction site [polypeptide binding]; other site 351605012531 GTP/Mg2+ binding site [chemical binding]; other site 351605012532 Switch I region; other site 351605012533 G2 box; other site 351605012534 G3 box; other site 351605012535 Switch II region; other site 351605012536 G4 box; other site 351605012537 G5 box; other site 351605012538 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 351605012539 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 351605012540 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 351605012541 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 351605012542 Active Sites [active] 351605012543 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 351605012544 Active Sites [active] 351605012545 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 351605012546 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 351605012547 transmembrane helices; other site 351605012548 Transposase IS200 like; Region: Y1_Tnp; pfam01797 351605012549 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 351605012550 CPxP motif; other site 351605012551 sulfite reductase, subunit C; Region: sulfite_red_C; TIGR02912 351605012552 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 351605012553 4Fe-4S binding domain; Region: Fer4; pfam00037 351605012554 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); Region: MPN_like; cd08070 351605012555 MPN+ (JAMM) motif; other site 351605012556 Zinc-binding site [ion binding]; other site 351605012557 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 351605012558 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 351605012559 ATP binding site [chemical binding]; other site 351605012560 substrate interface [chemical binding]; other site 351605012561 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 351605012562 thiS-thiF/thiG interaction site; other site 351605012563 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 351605012564 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 351605012565 homodimer interface [polypeptide binding]; other site 351605012566 substrate-cofactor binding pocket; other site 351605012567 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351605012568 catalytic residue [active] 351605012569 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 351605012570 Protein of unknown function (DUF3897); Region: DUF3897; pfam13036 351605012571 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5633 351605012572 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 351605012573 putative dimer interface [polypeptide binding]; other site 351605012574 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 351605012575 alternative sigma factor RpoH; Region: rpoH_proteo; TIGR02392 351605012576 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 351605012577 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 351605012578 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 351605012579 DNA binding residues [nucleotide binding] 351605012580 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 351605012581 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 351605012582 homodimer interface [polypeptide binding]; other site 351605012583 substrate-cofactor binding pocket; other site 351605012584 catalytic residue [active] 351605012585 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 351605012586 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 351605012587 Clp amino terminal domain; Region: Clp_N; pfam02861 351605012588 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 351605012589 Walker A motif; other site 351605012590 ATP binding site [chemical binding]; other site 351605012591 Walker B motif; other site 351605012592 arginine finger; other site 351605012593 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 351605012594 Walker A motif; other site 351605012595 ATP binding site [chemical binding]; other site 351605012596 Walker B motif; other site 351605012597 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 351605012598 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 351605012599 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 351605012600 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 351605012601 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 351605012602 conserved cys residue [active] 351605012603 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 351605012604 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 351605012605 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 351605012606 FeS/SAM binding site; other site 351605012607 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 351605012608 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 351605012609 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 351605012610 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 351605012611 BRO family, N-terminal domain; Region: Bro-N; smart01040 351605012612 cell division protein FtsZ; Validated; Region: PRK09330 351605012613 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 351605012614 nucleotide binding site [chemical binding]; other site 351605012615 SulA interaction site; other site 351605012616 cell division protein FtsA; Region: ftsA; TIGR01174 351605012617 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 351605012618 nucleotide binding site [chemical binding]; other site 351605012619 SHS2 domain inserted in FTSA; Region: SHS2_FTSA; pfam02491 351605012620 Cell division protein FtsA; Region: FtsA; pfam14450 351605012621 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 351605012622 Cell division protein FtsQ; Region: FtsQ; pfam03799 351605012623 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 351605012624 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 351605012625 ATP-grasp domain; Region: ATP-grasp_4; cl17255 351605012626 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 351605012627 FAD binding domain; Region: FAD_binding_4; pfam01565 351605012628 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 351605012629 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 351605012630 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 351605012631 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 351605012632 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 351605012633 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 351605012634 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 351605012635 active site 351605012636 homodimer interface [polypeptide binding]; other site 351605012637 cell division protein FtsW; Region: ftsW; TIGR02614 351605012638 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK14106 351605012639 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 351605012640 NAD(P) binding site [chemical binding]; other site 351605012641 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 351605012642 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 351605012643 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 351605012644 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 351605012645 Mg++ binding site [ion binding]; other site 351605012646 putative catalytic motif [active] 351605012647 putative substrate binding site [chemical binding]; other site 351605012648 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 351605012649 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 351605012650 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 351605012651 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 351605012652 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 351605012653 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 351605012654 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 351605012655 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 351605012656 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 351605012657 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 351605012658 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 351605012659 PASTA domain of PBP2x-like proteins, second 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_2; cd06575 351605012660 Septum formation initiator; Region: DivIC; pfam04977 351605012661 MraW methylase family; Region: Methyltransf_5; pfam01795 351605012662 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 351605012663 cell division protein MraZ; Reviewed; Region: PRK00326 351605012664 MraZ protein; Region: MraZ; pfam02381 351605012665 MraZ protein; Region: MraZ; pfam02381 351605012666 Response regulator receiver domain; Region: Response_reg; pfam00072 351605012667 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605012668 active site 351605012669 phosphorylation site [posttranslational modification] 351605012670 intermolecular recognition site; other site 351605012671 dimerization interface [polypeptide binding]; other site 351605012672 PilZ domain; Region: PilZ; pfam07238 351605012673 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 351605012674 Putative zinc ribbon domain; Region: DUF164; pfam02591 351605012675 Uncharacterized conserved protein [Function unknown]; Region: COG0327 351605012676 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 351605012677 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 351605012678 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 351605012679 Uncharacterized conserved protein [Function unknown]; Region: COG0327 351605012680 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 351605012681 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 351605012682 CARDB; Region: CARDB; pfam07705 351605012683 CARDB; Region: CARDB; pfam07705 351605012684 CARDB; Region: CARDB; pfam07705 351605012685 CARDB; Region: CARDB; pfam07705 351605012686 Family description; Region: VCBS; pfam13517 351605012687 Family description; Region: VCBS; pfam13517 351605012688 Family description; Region: VCBS; pfam13517 351605012689 CARDB; Region: CARDB; pfam07705 351605012690 CARDB; Region: CARDB; pfam07705 351605012691 CARDB; Region: CARDB; pfam07705 351605012692 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 351605012693 Peptidase family M23; Region: Peptidase_M23; pfam01551 351605012694 Tumour suppressor, Mitostatin; Region: Trichoplein; pfam13868 351605012695 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 351605012696 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 351605012697 Macro domain, Poa1p_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose...; Region: Macro_Poa1p_like; cd02901 351605012698 ADP-ribose binding site [chemical binding]; other site 351605012699 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 351605012700 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 351605012701 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 351605012702 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 351605012703 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 351605012704 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 351605012705 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 351605012706 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 351605012707 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 351605012708 CoA-ligase; Region: Ligase_CoA; pfam00549 351605012709 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 351605012710 CoA binding domain; Region: CoA_binding; smart00881 351605012711 CoA-ligase; Region: Ligase_CoA; pfam00549 351605012712 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 351605012713 precorrin-3B synthase; Region: CobG; TIGR02435 351605012714 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 351605012715 PEGA domain; Region: PEGA; pfam08308 351605012716 PEGA domain; Region: PEGA; pfam08308 351605012717 Domain of unknown function (DUF4337); Region: DUF4337; pfam14235 351605012718 Cytochrome c552; Region: Cytochrom_C552; pfam02335 351605012719 Response regulator receiver domain; Region: Response_reg; pfam00072 351605012720 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605012721 active site 351605012722 phosphorylation site [posttranslational modification] 351605012723 intermolecular recognition site; other site 351605012724 dimerization interface [polypeptide binding]; other site 351605012725 PAS domain S-box; Region: sensory_box; TIGR00229 351605012726 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 351605012727 putative active site [active] 351605012728 heme pocket [chemical binding]; other site 351605012729 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351605012730 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351605012731 metal binding site [ion binding]; metal-binding site 351605012732 active site 351605012733 I-site; other site 351605012734 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 351605012735 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 351605012736 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 351605012737 G1 box; other site 351605012738 putative GEF interaction site [polypeptide binding]; other site 351605012739 GTP/Mg2+ binding site [chemical binding]; other site 351605012740 Switch I region; other site 351605012741 G2 box; other site 351605012742 G3 box; other site 351605012743 Switch II region; other site 351605012744 G4 box; other site 351605012745 G5 box; other site 351605012746 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 351605012747 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 351605012748 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 351605012749 TPR motif; other site 351605012750 binding surface 351605012751 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 351605012752 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 351605012753 N-acetyl-D-glucosamine binding site [chemical binding]; other site 351605012754 catalytic residue [active] 351605012755 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 351605012756 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 351605012757 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 351605012758 Uncharacterized conserved protein [Function unknown]; Region: COG2006 351605012759 Domain of unknown function (DUF362); Region: DUF362; pfam04015 351605012760 4Fe-4S binding domain; Region: Fer4; pfam00037 351605012761 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 351605012762 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 351605012763 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 351605012764 active site 351605012765 Int/Topo IB signature motif; other site 351605012766 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 351605012767 YaeQ protein; Region: YaeQ; pfam07152 351605012768 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 351605012769 CoA binding domain; Region: CoA_binding_2; pfam13380 351605012770 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 351605012771 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 351605012772 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 351605012773 dimerization interface [polypeptide binding]; other site 351605012774 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 351605012775 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 351605012776 dimer interface [polypeptide binding]; other site 351605012777 putative CheW interface [polypeptide binding]; other site 351605012778 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 351605012779 DNA-binding site [nucleotide binding]; DNA binding site 351605012780 RNA-binding motif; other site 351605012781 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 351605012782 DNA-binding site [nucleotide binding]; DNA binding site 351605012783 RNA-binding motif; other site 351605012784 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 351605012785 S1 domain; Region: S1_2; pfam13509 351605012786 S1 domain; Region: S1_2; pfam13509 351605012787 SnoaL-like domain; Region: SnoaL_2; pfam12680 351605012788 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 351605012789 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351605012790 Walker A/P-loop; other site 351605012791 ATP binding site [chemical binding]; other site 351605012792 Q-loop/lid; other site 351605012793 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 351605012794 ABC transporter signature motif; other site 351605012795 Walker B; other site 351605012796 D-loop; other site 351605012797 ABC transporter; Region: ABC_tran_2; pfam12848 351605012798 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 351605012799 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 351605012800 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 351605012801 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605012802 active site 351605012803 phosphorylation site [posttranslational modification] 351605012804 intermolecular recognition site; other site 351605012805 dimerization interface [polypeptide binding]; other site 351605012806 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 351605012807 Zn2+ binding site [ion binding]; other site 351605012808 Mg2+ binding site [ion binding]; other site 351605012809 AAA domain; Region: AAA_26; pfam13500 351605012810 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 351605012811 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 351605012812 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 351605012813 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 351605012814 Response regulator receiver domain; Region: Response_reg; pfam00072 351605012815 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605012816 active site 351605012817 phosphorylation site [posttranslational modification] 351605012818 intermolecular recognition site; other site 351605012819 dimerization interface [polypeptide binding]; other site 351605012820 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 351605012821 dimer interface [polypeptide binding]; other site 351605012822 phosphorylation site [posttranslational modification] 351605012823 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 351605012824 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 351605012825 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 351605012826 Walker A motif; other site 351605012827 ATP binding site [chemical binding]; other site 351605012828 Walker B motif; other site 351605012829 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 351605012830 thioredoxin reductase; Provisional; Region: PRK10262 351605012831 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 351605012832 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 351605012833 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 351605012834 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 351605012835 threonine dehydratase; Provisional; Region: PRK08198 351605012836 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 351605012837 tetramer interface [polypeptide binding]; other site 351605012838 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351605012839 catalytic residue [active] 351605012840 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 351605012841 Protein of unknown function DUF45; Region: DUF45; pfam01863 351605012842 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 351605012843 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 351605012844 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 351605012845 ATP binding site [chemical binding]; other site 351605012846 putative Mg++ binding site [ion binding]; other site 351605012847 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 351605012848 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 351605012849 non-specific DNA binding site [nucleotide binding]; other site 351605012850 salt bridge; other site 351605012851 sequence-specific DNA binding site [nucleotide binding]; other site 351605012852 Domain of unknown function (DUF955); Region: DUF955; cl01076 351605012853 Piwi_piwi-like_ProArk: PIWI domain, Piwi-like subfamily found in Archaea and Bacteria. RNA silencing refers to a group of related gene-silencing mechanisms mediated by short RNA molecules, including siRNAs, miRNAs, and heterochromatin-related guide RNAs; Region: Piwi_piwi-like_ProArk; cd04659 351605012854 5' RNA guide strand anchoring site; other site 351605012855 active site 351605012856 SIR2-like domain; Region: SIR2_2; pfam13289 351605012857 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 351605012858 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 351605012859 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 351605012860 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 351605012861 HsdM N-terminal domain; Region: HsdM_N; pfam12161 351605012862 Methyltransferase domain; Region: Methyltransf_26; pfam13659 351605012863 transferase 1, rSAM/selenodomain-associated; Region: glyco_like_cofC; TIGR04282 351605012864 putative GTP cyclohydrolase; Provisional; Region: PRK13674 351605012865 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 351605012866 Ligand Binding Site [chemical binding]; other site 351605012867 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 351605012868 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 351605012869 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 351605012870 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 351605012871 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 351605012872 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 351605012873 DNA binding residues [nucleotide binding] 351605012874 DNA primase; Validated; Region: dnaG; PRK05667 351605012875 CHC2 zinc finger; Region: zf-CHC2; pfam01807 351605012876 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 351605012877 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 351605012878 active site 351605012879 metal binding site [ion binding]; metal-binding site 351605012880 interdomain interaction site; other site 351605012881 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 351605012882 Colicin V production protein; Region: Colicin_V; pfam02674 351605012883 Yqey-like protein; Region: YqeY; pfam09424 351605012884 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 351605012885 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 351605012886 metal binding site [ion binding]; metal-binding site 351605012887 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 351605012888 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 351605012889 substrate binding site [chemical binding]; other site 351605012890 glutamase interaction surface [polypeptide binding]; other site 351605012891 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 351605012892 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 351605012893 catalytic residues [active] 351605012894 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 351605012895 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 351605012896 putative active site [active] 351605012897 oxyanion strand; other site 351605012898 catalytic triad [active] 351605012899 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 351605012900 putative active site pocket [active] 351605012901 4-fold oligomerization interface [polypeptide binding]; other site 351605012902 metal binding residues [ion binding]; metal-binding site 351605012903 3-fold/trimer interface [polypeptide binding]; other site 351605012904 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 351605012905 histidinol dehydrogenase; Region: hisD; TIGR00069 351605012906 NAD binding site [chemical binding]; other site 351605012907 dimerization interface [polypeptide binding]; other site 351605012908 product binding site; other site 351605012909 substrate binding site [chemical binding]; other site 351605012910 zinc binding site [ion binding]; other site 351605012911 catalytic residues [active] 351605012912 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 351605012913 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 351605012914 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 351605012915 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 351605012916 hinge; other site 351605012917 active site 351605012918 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 351605012919 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 351605012920 S-adenosylmethionine binding site [chemical binding]; other site 351605012921 peptide chain release factor 1; Validated; Region: prfA; PRK00591 351605012922 This domain is found in peptide chain release factors; Region: PCRF; smart00937 351605012923 RF-1 domain; Region: RF-1; pfam00472 351605012924 Protein of unknown function (DUF1385); Region: DUF1385; pfam07136 351605012925 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 351605012926 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 351605012927 transcription termination factor Rho; Provisional; Region: rho; PRK09376 351605012928 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 351605012929 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 351605012930 RNA binding site [nucleotide binding]; other site 351605012931 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 351605012932 multimer interface [polypeptide binding]; other site 351605012933 Walker A motif; other site 351605012934 ATP binding site [chemical binding]; other site 351605012935 Walker B motif; other site 351605012936 hydrogenase 4 subunit B; Validated; Region: PRK06521 351605012937 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 351605012938 RF-1 domain; Region: RF-1; pfam00472 351605012939 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 351605012940 Protein of unknown function, DUF606; Region: DUF606; pfam04657 351605012941 methionine sulfoxide reductase B; Provisional; Region: PRK00222 351605012942 SelR domain; Region: SelR; pfam01641 351605012943 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 351605012944 L,D-transpeptidase; Provisional; Region: PRK10260 351605012945 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 351605012946 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 351605012947 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 351605012948 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 351605012949 S-adenosylmethionine binding site [chemical binding]; other site 351605012950 Flagellar protein (FlbD); Region: FlbD; pfam06289 351605012951 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 351605012952 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 351605012953 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 351605012954 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 351605012955 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 351605012956 ligand binding site [chemical binding]; other site 351605012957 Transposase, Mutator family; Region: Transposase_mut; pfam00872 351605012958 MULE transposase domain; Region: MULE; pfam10551 351605012959 PilZ domain; Region: PilZ; pfam07238 351605012960 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 351605012961 NAD dependent epimerase/dehydratase, LLPSF_EDH_00030 family; Region: EDH_00030; TIGR04180 351605012962 NAD binding site [chemical binding]; other site 351605012963 substrate binding site [chemical binding]; other site 351605012964 active site 351605012965 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 351605012966 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 351605012967 inhibitor-cofactor binding pocket; inhibition site 351605012968 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351605012969 catalytic residue [active] 351605012970 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 351605012971 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 351605012972 active site 351605012973 homodimer interface [polypeptide binding]; other site 351605012974 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 351605012975 NeuB family; Region: NeuB; pfam03102 351605012976 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 351605012977 NeuB binding interface [polypeptide binding]; other site 351605012978 putative substrate binding site [chemical binding]; other site 351605012979 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 351605012980 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 351605012981 putative trimer interface [polypeptide binding]; other site 351605012982 putative CoA binding site [chemical binding]; other site 351605012983 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 351605012984 FOG: CBS domain [General function prediction only]; Region: COG0517 351605012985 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 351605012986 NTP_trnasferase_like_2 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_2; cd06426 351605012987 Substrate binding site; other site 351605012988 metal-binding site 351605012989 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 351605012990 ligand binding site; other site 351605012991 tetramer interface; other site 351605012992 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 351605012993 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 351605012994 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 351605012995 FeS/SAM binding site; other site 351605012996 Protein of unknown function DUF115; Region: MAF_flag10; pfam01973 351605012997 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 351605012998 binding surface 351605012999 TPR motif; other site 351605013000 Flagellar protein FliS; Region: FliS; cl00654 351605013001 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 351605013002 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 351605013003 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 351605013004 flagellin; Provisional; Region: PRK12802 351605013005 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 351605013006 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 351605013007 flagellar assembly protein FliW; Provisional; Region: PRK13285 351605013008 Global regulator protein family; Region: CsrA; pfam02599 351605013009 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK07701 351605013010 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 351605013011 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 351605013012 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07739 351605013013 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 351605013014 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 351605013015 FlgN protein; Region: FlgN; pfam05130 351605013016 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 351605013017 Rod binding protein; Region: Rod-binding; pfam10135 351605013018 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 351605013019 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 351605013020 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 351605013021 Flagellar L-ring protein; Region: FlgH; pfam02107 351605013022 SAF-like; Region: SAF_2; pfam13144 351605013023 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 351605013024 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 351605013025 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 351605013026 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 351605013027 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 351605013028 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 351605013029 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 351605013030 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 351605013031 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 351605013032 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 351605013033 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 351605013034 DNA binding residues [nucleotide binding] 351605013035 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 351605013036 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 351605013037 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 351605013038 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 351605013039 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 351605013040 FHIPEP family; Region: FHIPEP; pfam00771 351605013041 Surface antigen; Region: Bac_surface_Ag; pfam01103 351605013042 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 351605013043 Divergent AAA domain; Region: AAA_4; pfam04326 351605013044 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 351605013045 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 351605013046 Domain of unknown function (DUF3578); Region: DUF3578; pfam12102 351605013047 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 351605013048 Transposase; Region: DDE_Tnp_ISL3; pfam01610 351605013049 GTPase subunit of restriction endonuclease [Defense mechanisms]; Region: McrB; COG1401 351605013050 Domain of unknown function (DUF2357); Region: DUF2357; pfam09823 351605013051 Protein of unknown function (DUF524); Region: DUF524; pfam04411 351605013052 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 351605013053 putative active site [active] 351605013054 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 351605013055 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 351605013056 FeS/SAM binding site; other site 351605013057 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 351605013058 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 351605013059 non-specific DNA binding site [nucleotide binding]; other site 351605013060 salt bridge; other site 351605013061 sequence-specific DNA binding site [nucleotide binding]; other site 351605013062 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 351605013063 heme-binding residues [chemical binding]; other site 351605013064 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 351605013065 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 351605013066 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 351605013067 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 351605013068 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 351605013069 heme-binding residues [chemical binding]; other site 351605013070 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 351605013071 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 351605013072 active site 351605013073 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 351605013074 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 351605013075 phosphoglyceromutase; Provisional; Region: PRK05434 351605013076 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 351605013077 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 351605013078 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 351605013079 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 351605013080 active site 351605013081 (T/H)XGH motif; other site 351605013082 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 351605013083 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 351605013084 putative catalytic cysteine [active] 351605013085 gamma-glutamyl kinase; Provisional; Region: PRK05429 351605013086 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 351605013087 homotetrameric interface [polypeptide binding]; other site 351605013088 putative phosphate binding site [ion binding]; other site 351605013089 putative allosteric binding site; other site 351605013090 nucleotide binding site [chemical binding]; other site 351605013091 PUA domain; Region: PUA; pfam01472 351605013092 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 351605013093 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 351605013094 Transposase; Region: DDE_Tnp_ISL3; pfam01610 351605013095 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 351605013096 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 351605013097 Bacitracin resistance protein BacA; Region: BacA; pfam02673 351605013098 hypothetical protein; Reviewed; Region: PRK00024 351605013099 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 351605013100 MPN+ (JAMM) motif; other site 351605013101 Zinc-binding site [ion binding]; other site 351605013102 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 351605013103 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 351605013104 putative active site [active] 351605013105 putative NTP binding site [chemical binding]; other site 351605013106 putative nucleic acid binding site [nucleotide binding]; other site 351605013107 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 351605013108 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 351605013109 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 351605013110 zinc-ribbon domain; Region: zinc_ribbon_4; pfam13717 351605013111 Bacterial protein of unknown function (DUF898); Region: DUF898; pfam05987 351605013112 Peptidase family M48; Region: Peptidase_M48; cl12018 351605013113 AAA domain; Region: AAA_14; pfam13173 351605013114 AAA domain; Region: AAA_22; pfam13401 351605013115 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 351605013116 DDE superfamily endonuclease; Region: DDE_5; pfam13546 351605013117 Abi-like protein; Region: Abi_2; pfam07751 351605013118 Fic family protein [Function unknown]; Region: COG3177 351605013119 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 351605013120 Fic/DOC family; Region: Fic; pfam02661 351605013121 Methyltransferase domain; Region: Methyltransf_32; pfam13679 351605013122 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 351605013123 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 351605013124 putative active site [active] 351605013125 putative NTP binding site [chemical binding]; other site 351605013126 putative nucleic acid binding site [nucleotide binding]; other site 351605013127 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 351605013128 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 351605013129 nucleotide binding site/active site [active] 351605013130 HIT family signature motif; other site 351605013131 catalytic residue [active] 351605013132 Rubrerythrin [Energy production and conversion]; Region: COG1592 351605013133 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 351605013134 binuclear metal center [ion binding]; other site 351605013135 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 351605013136 iron binding site [ion binding]; other site 351605013137 O-methyltransferase; Region: Methyltransf_2; pfam00891 351605013138 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK14869 351605013139 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with a DRTGG domain upstream. The function of the DRTGG domain, named after its conserved residues, is unknown. CBS is a small domain originally...; Region: CBS_pair_DRTGG_assoc2; cd04597 351605013140 DRTGG domain; Region: DRTGG; pfam07085 351605013141 DHH family; Region: DHH; pfam01368 351605013142 DHHA2 domain; Region: DHHA2; pfam02833 351605013143 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 351605013144 nucleoside/Zn binding site; other site 351605013145 dimer interface [polypeptide binding]; other site 351605013146 catalytic motif [active] 351605013147 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 351605013148 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 351605013149 Metal-binding active site; metal-binding site 351605013150 AP (apurinic/apyrimidinic) site pocket; other site 351605013151 Ion channel; Region: Ion_trans_2; pfam07885 351605013152 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 351605013153 TrkA-N domain; Region: TrkA_N; pfam02254 351605013154 TrkA-C domain; Region: TrkA_C; pfam02080 351605013155 Transcriptional regulators [Transcription]; Region: GntR; COG1802 351605013156 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 351605013157 DNA-binding site [nucleotide binding]; DNA binding site 351605013158 FCD domain; Region: FCD; pfam07729 351605013159 selenocysteine synthase; Provisional; Region: PRK04311 351605013160 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 351605013161 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 351605013162 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 351605013163 catalytic residue [active] 351605013164 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 351605013165 substrate binding site; other site 351605013166 dimer interface; other site 351605013167 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 351605013168 homotrimer interaction site [polypeptide binding]; other site 351605013169 zinc binding site [ion binding]; other site 351605013170 CDP-binding sites; other site 351605013171 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 351605013172 active site 351605013173 NTP binding site [chemical binding]; other site 351605013174 metal binding triad [ion binding]; metal-binding site 351605013175 antibiotic binding site [chemical binding]; other site 351605013176 Uncharacterized conserved protein [Function unknown]; Region: COG2361 351605013177 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 351605013178 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 351605013179 active site 351605013180 HIGH motif; other site 351605013181 nucleotide binding site [chemical binding]; other site 351605013182 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 351605013183 KMSKS motif; other site 351605013184 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 351605013185 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605013186 active site 351605013187 phosphorylation site [posttranslational modification] 351605013188 intermolecular recognition site; other site 351605013189 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 351605013190 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 351605013191 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 351605013192 TPR repeat; Region: TPR_11; pfam13414 351605013193 binding surface 351605013194 TPR motif; other site 351605013195 TPR repeat; Region: TPR_11; pfam13414 351605013196 CheW-like domain; Region: CheW; pfam01584 351605013197 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 351605013198 dimerization interface [polypeptide binding]; other site 351605013199 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 351605013200 dimer interface [polypeptide binding]; other site 351605013201 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 351605013202 putative CheW interface [polypeptide binding]; other site 351605013203 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 351605013204 putative binding surface; other site 351605013205 active site 351605013206 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 351605013207 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 351605013208 ATP binding site [chemical binding]; other site 351605013209 Mg2+ binding site [ion binding]; other site 351605013210 G-X-G motif; other site 351605013211 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 351605013212 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 351605013213 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605013214 active site 351605013215 phosphorylation site [posttranslational modification] 351605013216 intermolecular recognition site; other site 351605013217 dimerization interface [polypeptide binding]; other site 351605013218 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 351605013219 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605013220 active site 351605013221 phosphorylation site [posttranslational modification] 351605013222 intermolecular recognition site; other site 351605013223 dimerization interface [polypeptide binding]; other site 351605013224 CheB methylesterase; Region: CheB_methylest; pfam01339 351605013225 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 351605013226 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605013227 active site 351605013228 phosphorylation site [posttranslational modification] 351605013229 intermolecular recognition site; other site 351605013230 dimerization interface [polypeptide binding]; other site 351605013231 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 351605013232 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 351605013233 active site 351605013234 HIGH motif; other site 351605013235 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 351605013236 KMSKS motif; other site 351605013237 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 351605013238 tRNA binding surface [nucleotide binding]; other site 351605013239 anticodon binding site; other site 351605013240 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 351605013241 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 351605013242 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 351605013243 Putative Fe-S cluster; Region: FeS; cl17515 351605013244 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 351605013245 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 351605013246 Walker A motif; other site 351605013247 ATP binding site [chemical binding]; other site 351605013248 Walker B motif; other site 351605013249 arginine finger; other site 351605013250 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 351605013251 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 351605013252 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 351605013253 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13639 351605013254 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 351605013255 Walker A/P-loop; other site 351605013256 ATP binding site [chemical binding]; other site 351605013257 Q-loop/lid; other site 351605013258 ABC transporter signature motif; other site 351605013259 Walker B; other site 351605013260 D-loop; other site 351605013261 H-loop/switch region; other site 351605013262 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 351605013263 cobalt transport protein CbiM; Validated; Region: PRK08319 351605013264 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 351605013265 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 351605013266 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 351605013267 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 351605013268 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cd01983 351605013269 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 351605013270 catalytic triad [active] 351605013271 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 351605013272 catalytic core [active] 351605013273 cobalamin synthase; Reviewed; Region: cobS; PRK00235 351605013274 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 351605013275 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 351605013276 putative dimer interface [polypeptide binding]; other site 351605013277 active site pocket [active] 351605013278 putative cataytic base [active] 351605013279 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 351605013280 homotrimer interface [polypeptide binding]; other site 351605013281 Walker A motif; other site 351605013282 GTP binding site [chemical binding]; other site 351605013283 Walker B motif; other site 351605013284 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 351605013285 G1 box; other site 351605013286 GTP/Mg2+ binding site [chemical binding]; other site 351605013287 Switch I region; other site 351605013288 G2 box; other site 351605013289 G3 box; other site 351605013290 Switch II region; other site 351605013291 G4 box; other site 351605013292 G5 box; other site 351605013293 HDOD domain; Region: HDOD; pfam08668 351605013294 HD domain; Region: HD; pfam01966 351605013295 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 351605013296 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 351605013297 dimerization interface [polypeptide binding]; other site 351605013298 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 351605013299 dimer interface [polypeptide binding]; other site 351605013300 phosphorylation site [posttranslational modification] 351605013301 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 351605013302 ATP binding site [chemical binding]; other site 351605013303 Mg2+ binding site [ion binding]; other site 351605013304 G-X-G motif; other site 351605013305 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 351605013306 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605013307 active site 351605013308 phosphorylation site [posttranslational modification] 351605013309 intermolecular recognition site; other site 351605013310 dimerization interface [polypeptide binding]; other site 351605013311 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 351605013312 Walker A motif; other site 351605013313 ATP binding site [chemical binding]; other site 351605013314 Walker B motif; other site 351605013315 arginine finger; other site 351605013316 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 351605013317 This family is most closely related to the oligosaccharide phosphorylase domain family and other unidentified sequences. Oligosaccharide phosphorylase catalyzes the breakdown of oligosaccharides into glucose-1-phosphate units. They are important...; Region: GT1_Glycogen_Phosphorylase_like; cd04299 351605013318 putative homodimer interface [polypeptide binding]; other site 351605013319 putative active site pocket [active] 351605013320 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 351605013321 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 351605013322 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 351605013323 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 351605013324 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 351605013325 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 351605013326 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 351605013327 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 351605013328 flagellar biosynthetic protein FliO; Region: FliO_TIGR; TIGR03500 351605013329 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 351605013330 flagellar motor switch protein FliM; Region: fliM_switch; TIGR01397 351605013331 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 351605013332 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 351605013333 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 351605013334 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 351605013335 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 351605013336 Protein of unknown function (DUF3766); Region: DUF3766; cl11797 351605013337 Flagellar hook capping protein [Cell motility and secretion]; Region: FlgD; COG1843 351605013338 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 351605013339 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 351605013340 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 351605013341 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 351605013342 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 351605013343 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 351605013344 Walker A motif/ATP binding site; other site 351605013345 Walker B motif; other site 351605013346 Flagellar assembly protein FliH; Region: FliH; pfam02108 351605013347 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 351605013348 FliG C-terminal domain; Region: FliG_C; pfam01706 351605013349 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 351605013350 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 351605013351 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 351605013352 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 351605013353 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgC; COG1558 351605013354 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 351605013355 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 351605013356 flagellar basal-body rod protein FlgB; Region: FlgB; TIGR01396 351605013357 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 351605013358 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 351605013359 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 351605013360 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605013361 active site 351605013362 phosphorylation site [posttranslational modification] 351605013363 intermolecular recognition site; other site 351605013364 dimerization interface [polypeptide binding]; other site 351605013365 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 351605013366 Response regulator receiver domain; Region: Response_reg; pfam00072 351605013367 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605013368 active site 351605013369 phosphorylation site [posttranslational modification] 351605013370 intermolecular recognition site; other site 351605013371 dimerization interface [polypeptide binding]; other site 351605013372 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 351605013373 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 351605013374 dimer interface [polypeptide binding]; other site 351605013375 phosphorylation site [posttranslational modification] 351605013376 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 351605013377 ATP binding site [chemical binding]; other site 351605013378 Mg2+ binding site [ion binding]; other site 351605013379 G-X-G motif; other site 351605013380 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 351605013381 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 351605013382 dimer interface [polypeptide binding]; other site 351605013383 putative CheW interface [polypeptide binding]; other site 351605013384 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 351605013385 dimerization interface [polypeptide binding]; other site 351605013386 putative DNA binding site [nucleotide binding]; other site 351605013387 putative Zn2+ binding site [ion binding]; other site 351605013388 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 351605013389 active site residue [active] 351605013390 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 351605013391 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 351605013392 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 351605013393 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 351605013394 Protein export membrane protein; Region: SecD_SecF; cl14618 351605013395 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 351605013396 HlyD family secretion protein; Region: HlyD_3; pfam13437 351605013397 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 351605013398 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 351605013399 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 351605013400 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 351605013401 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 351605013402 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 351605013403 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 351605013404 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 351605013405 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 351605013406 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 351605013407 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 351605013408 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 351605013409 4Fe-4S binding domain; Region: Fer4; pfam00037 351605013410 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 351605013411 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 351605013412 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 351605013413 catalytic loop [active] 351605013414 iron binding site [ion binding]; other site 351605013415 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 351605013416 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 351605013417 molybdopterin cofactor binding site; other site 351605013418 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 351605013419 molybdopterin cofactor binding site; other site 351605013420 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 351605013421 dimer interface [polypeptide binding]; other site 351605013422 [2Fe-2S] cluster binding site [ion binding]; other site 351605013423 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 351605013424 SLBB domain; Region: SLBB; pfam10531 351605013425 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 351605013426 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 351605013427 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 351605013428 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 351605013429 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 351605013430 putative dimer interface [polypeptide binding]; other site 351605013431 [2Fe-2S] cluster binding site [ion binding]; other site 351605013432 NADH dehydrogenase subunit D; Validated; Region: PRK06075 351605013433 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 351605013434 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 351605013435 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 351605013436 NADH dehydrogenase subunit B; Validated; Region: PRK06411 351605013437 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 351605013438 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 351605013439 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 351605013440 inhibitor-cofactor binding pocket; inhibition site 351605013441 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351605013442 catalytic residue [active] 351605013443 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 351605013444 ATP synthase I chain; Region: ATP_synt_I; cl09170 351605013445 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 351605013446 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 351605013447 ATP synthase subunit C; Region: ATP-synt_C; cl00466 351605013448 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 351605013449 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 351605013450 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 351605013451 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 351605013452 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 351605013453 putative active site [active] 351605013454 putative NTP binding site [chemical binding]; other site 351605013455 putative nucleic acid binding site [nucleotide binding]; other site 351605013456 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 351605013457 multifunctional aminopeptidase A; Provisional; Region: PRK00913 351605013458 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 351605013459 interface (dimer of trimers) [polypeptide binding]; other site 351605013460 Substrate-binding/catalytic site; other site 351605013461 Zn-binding sites [ion binding]; other site 351605013462 putative hydrolase; Validated; Region: PRK09248 351605013463 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 351605013464 active site 351605013465 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 351605013466 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 351605013467 dimerization interface [polypeptide binding]; other site 351605013468 PAS domain S-box; Region: sensory_box; TIGR00229 351605013469 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 351605013470 putative active site [active] 351605013471 heme pocket [chemical binding]; other site 351605013472 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 351605013473 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 351605013474 P-loop; other site 351605013475 Magnesium ion binding site [ion binding]; other site 351605013476 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 351605013477 Magnesium ion binding site [ion binding]; other site 351605013478 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 351605013479 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 351605013480 ParB-like nuclease domain; Region: ParB; smart00470 351605013481 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 351605013482 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 351605013483 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 351605013484 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13429 351605013485 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 351605013486 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 351605013487 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 351605013488 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 351605013489 beta subunit interaction interface [polypeptide binding]; other site 351605013490 Walker A motif; other site 351605013491 ATP binding site [chemical binding]; other site 351605013492 Walker B motif; other site 351605013493 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 351605013494 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 351605013495 core domain interface [polypeptide binding]; other site 351605013496 delta subunit interface [polypeptide binding]; other site 351605013497 epsilon subunit interface [polypeptide binding]; other site 351605013498 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 351605013499 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 351605013500 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 351605013501 alpha subunit interaction interface [polypeptide binding]; other site 351605013502 Walker A motif; other site 351605013503 ATP binding site [chemical binding]; other site 351605013504 Walker B motif; other site 351605013505 inhibitor binding site; inhibition site 351605013506 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 351605013507 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13446 351605013508 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 351605013509 gamma subunit interface [polypeptide binding]; other site 351605013510 epsilon subunit interface [polypeptide binding]; other site 351605013511 LBP interface [polypeptide binding]; other site 351605013512 Flagellin N-methylase; Region: FliB; pfam03692 351605013513 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 351605013514 Zn2+ binding site [ion binding]; other site 351605013515 Mg2+ binding site [ion binding]; other site 351605013516 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 351605013517 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 351605013518 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 351605013519 Protein of unknown function (DUF454); Region: DUF454; cl01063 351605013520 Transglycosylase; Region: Transgly; pfam00912 351605013521 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 351605013522 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605013523 active site 351605013524 phosphorylation site [posttranslational modification] 351605013525 intermolecular recognition site; other site 351605013526 dimerization interface [polypeptide binding]; other site 351605013527 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 351605013528 Zn2+ binding site [ion binding]; other site 351605013529 Mg2+ binding site [ion binding]; other site 351605013530 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 351605013531 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 351605013532 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 351605013533 dimer interface [polypeptide binding]; other site 351605013534 phosphorylation site [posttranslational modification] 351605013535 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 351605013536 ATP binding site [chemical binding]; other site 351605013537 Mg2+ binding site [ion binding]; other site 351605013538 G-X-G motif; other site 351605013539 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 351605013540 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605013541 active site 351605013542 phosphorylation site [posttranslational modification] 351605013543 intermolecular recognition site; other site 351605013544 dimerization interface [polypeptide binding]; other site 351605013545 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 351605013546 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 351605013547 Ligand Binding Site [chemical binding]; other site 351605013548 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 351605013549 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 351605013550 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 351605013551 Walker A motif; other site 351605013552 ATP binding site [chemical binding]; other site 351605013553 Walker B motif; other site 351605013554 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 351605013555 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 351605013556 Walker A motif; other site 351605013557 ATP binding site [chemical binding]; other site 351605013558 Walker B motif; other site 351605013559 Methyltransferase domain; Region: Methyltransf_31; pfam13847 351605013560 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 351605013561 S-adenosylmethionine binding site [chemical binding]; other site 351605013562 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 351605013563 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 351605013564 inhibitor-cofactor binding pocket; inhibition site 351605013565 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351605013566 catalytic residue [active] 351605013567 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 351605013568 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 351605013569 NDP-hexose 2,3-dehydratase; Region: Hexose_dehydrat; pfam03559 351605013570 NDP-hexose 2,3-dehydratase; Region: Hexose_dehydrat; pfam03559 351605013571 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 351605013572 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 351605013573 Ligand binding site; other site 351605013574 Putative Catalytic site; other site 351605013575 DXD motif; other site 351605013576 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 351605013577 prenyltransferase; Reviewed; Region: ubiA; PRK12886 351605013578 UbiA prenyltransferase family; Region: UbiA; pfam01040 351605013579 aromatic acid decarboxylase; Validated; Region: PRK05920 351605013580 Flavoprotein; Region: Flavoprotein; pfam02441 351605013581 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 351605013582 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 351605013583 FeS/SAM binding site; other site 351605013584 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 351605013585 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 351605013586 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 351605013587 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351605013588 homodimer interface [polypeptide binding]; other site 351605013589 catalytic residue [active] 351605013590 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 351605013591 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 351605013592 catalytic site [active] 351605013593 putative active site [active] 351605013594 putative substrate binding site [chemical binding]; other site 351605013595 HRDC domain; Region: HRDC; pfam00570 351605013596 HRDC domain; Region: HRDC; pfam00570 351605013597 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 351605013598 RNA methyltransferase, RsmE family; Region: TIGR00046 351605013599 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 351605013600 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 351605013601 S-adenosylmethionine binding site [chemical binding]; other site 351605013602 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 351605013603 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 351605013604 metal binding site [ion binding]; metal-binding site 351605013605 PEP synthetase regulatory protein; Provisional; Region: PRK05339 351605013606 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 351605013607 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605013608 active site 351605013609 phosphorylation site [posttranslational modification] 351605013610 intermolecular recognition site; other site 351605013611 dimerization interface [polypeptide binding]; other site 351605013612 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 351605013613 DNA binding site [nucleotide binding] 351605013614 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 351605013615 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 351605013616 dimerization interface [polypeptide binding]; other site 351605013617 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 351605013618 dimer interface [polypeptide binding]; other site 351605013619 phosphorylation site [posttranslational modification] 351605013620 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 351605013621 ATP binding site [chemical binding]; other site 351605013622 Mg2+ binding site [ion binding]; other site 351605013623 G-X-G motif; other site 351605013624 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 351605013625 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 351605013626 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 351605013627 protein binding site [polypeptide binding]; other site 351605013628 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 351605013629 protein binding site [polypeptide binding]; other site 351605013630 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 351605013631 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 351605013632 ATP binding site [chemical binding]; other site 351605013633 putative Mg++ binding site [ion binding]; other site 351605013634 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 351605013635 nucleotide binding region [chemical binding]; other site 351605013636 ATP-binding site [chemical binding]; other site 351605013637 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 351605013638 HRDC domain; Region: HRDC; pfam00570 351605013639 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 351605013640 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 351605013641 putative acyl-acceptor binding pocket; other site 351605013642 Major Facilitator Superfamily; Region: MFS_1; pfam07690 351605013643 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 351605013644 putative substrate translocation pore; other site 351605013645 Divergent AAA domain; Region: AAA_4; pfam04326 351605013646 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 351605013647 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 351605013648 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 351605013649 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 351605013650 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 351605013651 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 351605013652 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 351605013653 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 351605013654 Protein of unknown function (DUF507); Region: DUF507; cl01112 351605013655 Protein of unknown function (DUF507); Region: DUF507; cl01112 351605013656 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 351605013657 oligomerisation interface [polypeptide binding]; other site 351605013658 mobile loop; other site 351605013659 roof hairpin; other site 351605013660 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 351605013661 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 351605013662 ring oligomerisation interface [polypeptide binding]; other site 351605013663 ATP/Mg binding site [chemical binding]; other site 351605013664 stacking interactions; other site 351605013665 hinge regions; other site 351605013666 PrkA AAA domain; Region: AAA_PrkA; smart00763 351605013667 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 351605013668 hypothetical protein; Provisional; Region: PRK05325 351605013669 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 351605013670 PrkA AAA domain; Region: AAA_PrkA; smart00763 351605013671 K+ potassium transporter; Region: K_trans; pfam02705 351605013672 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 351605013673 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 351605013674 active site 351605013675 HIGH motif; other site 351605013676 nucleotide binding site [chemical binding]; other site 351605013677 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 351605013678 active site 351605013679 KMSKS motif; other site 351605013680 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 351605013681 tRNA binding surface [nucleotide binding]; other site 351605013682 anticodon binding site; other site 351605013683 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 351605013684 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 351605013685 lipoprotein signal peptidase; Provisional; Region: PRK14787 351605013686 Putative exonuclease, RdgC; Region: RdgC; cl01122 351605013687 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 351605013688 PAS domain; Region: PAS_9; pfam13426 351605013689 putative active site [active] 351605013690 heme pocket [chemical binding]; other site 351605013691 PAS fold; Region: PAS; pfam00989 351605013692 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 351605013693 putative active site [active] 351605013694 heme pocket [chemical binding]; other site 351605013695 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 351605013696 CPxP motif; other site 351605013697 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 351605013698 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 351605013699 active site 351605013700 Glutamine synthetase adenylyltransferase [Posttranslational modification, protein turnover, chaperones / Signal transduction mechanisms]; Region: GlnE; COG1391 351605013701 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 351605013702 metal binding triad; other site 351605013703 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 351605013704 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 351605013705 metal binding triad; other site 351605013706 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 351605013707 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182 351605013708 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 351605013709 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 351605013710 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 351605013711 GatB domain; Region: GatB_Yqey; smart00845 351605013712 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 351605013713 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 351605013714 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 351605013715 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 351605013716 Part of AAA domain; Region: AAA_19; pfam13245 351605013717 Family description; Region: UvrD_C_2; pfam13538 351605013718 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14965 351605013719 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 351605013720 Walker A motif; other site 351605013721 ATP binding site [chemical binding]; other site 351605013722 Walker B motif; other site 351605013723 arginine finger; other site 351605013724 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 351605013725 hypothetical protein; Validated; Region: PRK00153 351605013726 recombination protein RecR; Reviewed; Region: recR; PRK00076 351605013727 RecR protein; Region: RecR; pfam02132 351605013728 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 351605013729 putative active site [active] 351605013730 putative metal-binding site [ion binding]; other site 351605013731 tetramer interface [polypeptide binding]; other site 351605013732 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 351605013733 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 351605013734 dimer interface [polypeptide binding]; other site 351605013735 PYR/PP interface [polypeptide binding]; other site 351605013736 TPP binding site [chemical binding]; other site 351605013737 substrate binding site [chemical binding]; other site 351605013738 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 351605013739 Domain of unknown function; Region: EKR; pfam10371 351605013740 4Fe-4S binding domain; Region: Fer4_6; pfam12837 351605013741 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 351605013742 TPP-binding site [chemical binding]; other site 351605013743 dimer interface [polypeptide binding]; other site 351605013744 Roadblock/LC7 domain; Region: Robl_LC7; smart00960 351605013745 GTPase SAR1 and related small G proteins [General function prediction only]; Region: COG1100 351605013746 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 351605013747 G1 box; other site 351605013748 GTP/Mg2+ binding site [chemical binding]; other site 351605013749 G2 box; other site 351605013750 Switch I region; other site 351605013751 G3 box; other site 351605013752 Switch II region; other site 351605013753 G4 box; other site 351605013754 G5 box; other site 351605013755 outer membrane protein A; Reviewed; Region: PRK10808 351605013756 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 351605013757 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 351605013758 ligand binding site [chemical binding]; other site 351605013759 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 351605013760 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 351605013761 ligand binding site [chemical binding]; other site 351605013762 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 351605013763 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 351605013764 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 351605013765 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 351605013766 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 351605013767 ligand binding site [chemical binding]; other site 351605013768 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 351605013769 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 351605013770 B12 binding site [chemical binding]; other site 351605013771 Domain of unknown function (DUF4070); Region: DUF4070; pfam13282 351605013772 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 351605013773 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 351605013774 Coenzyme A binding pocket [chemical binding]; other site 351605013775 acetylornithine deacetylase or succinyl-diaminopimelate desuccinylase; Region: DapE-ArgE; TIGR01910 351605013776 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 351605013777 metal binding site [ion binding]; metal-binding site 351605013778 dimer interface [polypeptide binding]; other site 351605013779 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 351605013780 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 351605013781 Putative glucoamylase; Region: Glycoamylase; pfam10091 351605013782 Second GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_2_like; cd11753 351605013783 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 351605013784 First GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_1_like; cd11756 351605013785 Homeodomain-like domain; Region: HTH_32; pfam13565 351605013786 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 351605013787 Integrase core domain; Region: rve; pfam00665 351605013788 Integrase core domain; Region: rve_3; pfam13683 351605013789 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 351605013790 Transcriptional regulator [Transcription]; Region: IclR; COG1414 351605013791 Bacterial transcriptional regulator; Region: IclR; pfam01614 351605013792 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 351605013793 CoA binding domain; Region: CoA_binding; pfam02629 351605013794 CoA-ligase; Region: Ligase_CoA; pfam00549 351605013795 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 351605013796 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 351605013797 CoA-ligase; Region: Ligase_CoA; pfam00549 351605013798 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 351605013799 NADP(H)-dependent alcohol dehydrogenases; Region: NADP_ADH; cd08285 351605013800 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 351605013801 tetramer interface [polypeptide binding]; other site 351605013802 catalytic Zn binding site [ion binding]; other site 351605013803 NADP binding site [chemical binding]; other site 351605013804 DUF35 OB-fold domain; Region: DUF35; pfam01796 351605013805 acetyl-CoA acetyltransferase; Provisional; Region: PRK06064 351605013806 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 351605013807 active site 351605013808 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 351605013809 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 351605013810 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 351605013811 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 351605013812 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 351605013813 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 351605013814 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 351605013815 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 351605013816 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 351605013817 Acetone carboxylase gamma subunit; Region: Acetone_carb_G; pfam08882 351605013818 Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcxC; COG4647 351605013819 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 351605013820 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 351605013821 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 351605013822 GAF domain; Region: GAF; pfam01590 351605013823 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 351605013824 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 351605013825 Walker A motif; other site 351605013826 ATP binding site [chemical binding]; other site 351605013827 Walker B motif; other site 351605013828 arginine finger; other site 351605013829 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 351605013830 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 351605013831 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 351605013832 dimer interface [polypeptide binding]; other site 351605013833 phosphorylation site [posttranslational modification] 351605013834 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 351605013835 ATP binding site [chemical binding]; other site 351605013836 Mg2+ binding site [ion binding]; other site 351605013837 G-X-G motif; other site 351605013838 Response regulator receiver domain; Region: Response_reg; pfam00072 351605013839 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605013840 active site 351605013841 phosphorylation site [posttranslational modification] 351605013842 intermolecular recognition site; other site 351605013843 dimerization interface [polypeptide binding]; other site 351605013844 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 351605013845 Homeodomain-like domain; Region: HTH_32; pfam13565 351605013846 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 351605013847 Integrase core domain; Region: rve; pfam00665 351605013848 Integrase core domain; Region: rve_3; pfam13683 351605013849 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 351605013850 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 351605013851 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 351605013852 active site 351605013853 catalytic tetrad [active] 351605013854 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 351605013855 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 351605013856 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 351605013857 Uncharacterized enzymes similar to novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like-3; cd12810 351605013858 catalytic site [active] 351605013859 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 351605013860 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 351605013861 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 351605013862 active site 351605013863 catalytic tetrad [active] 351605013864 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 351605013865 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 351605013866 active site 351605013867 catalytic tetrad [active] 351605013868 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 351605013869 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 351605013870 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 351605013871 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 351605013872 active site residue [active] 351605013873 YceI-like domain; Region: YceI; pfam04264 351605013874 Response regulator receiver domain; Region: Response_reg; pfam00072 351605013875 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605013876 active site 351605013877 phosphorylation site [posttranslational modification] 351605013878 intermolecular recognition site; other site 351605013879 dimerization interface [polypeptide binding]; other site 351605013880 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 351605013881 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 351605013882 putative active site [active] 351605013883 heme pocket [chemical binding]; other site 351605013884 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 351605013885 putative active site [active] 351605013886 heme pocket [chemical binding]; other site 351605013887 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 351605013888 dimer interface [polypeptide binding]; other site 351605013889 phosphorylation site [posttranslational modification] 351605013890 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 351605013891 ATP binding site [chemical binding]; other site 351605013892 Mg2+ binding site [ion binding]; other site 351605013893 G-X-G motif; other site 351605013894 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 351605013895 PAS domain S-box; Region: sensory_box; TIGR00229 351605013896 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 351605013897 putative active site [active] 351605013898 heme pocket [chemical binding]; other site 351605013899 PAS domain; Region: PAS_9; pfam13426 351605013900 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 351605013901 GAF domain; Region: GAF; pfam01590 351605013902 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 351605013903 dimer interface [polypeptide binding]; other site 351605013904 phosphorylation site [posttranslational modification] 351605013905 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 351605013906 ATP binding site [chemical binding]; other site 351605013907 Mg2+ binding site [ion binding]; other site 351605013908 G-X-G motif; other site 351605013909 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 351605013910 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 351605013911 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 351605013912 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 351605013913 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 351605013914 DNA-binding site [nucleotide binding]; DNA binding site 351605013915 RNA-binding motif; other site 351605013916 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 351605013917 This PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily and is found in both archaea and bacteria. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible...; Region: PGM_like2; cd05800 351605013918 active site 351605013919 substrate binding site [chemical binding]; other site 351605013920 metal binding site [ion binding]; metal-binding site 351605013921 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 351605013922 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 351605013923 substrate binding site [chemical binding]; other site 351605013924 ResB-like family; Region: ResB; pfam05140 351605013925 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 351605013926 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 351605013927 active site 351605013928 catalytic residues [active] 351605013929 metal binding site [ion binding]; metal-binding site 351605013930 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 351605013931 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 351605013932 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 351605013933 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 351605013934 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 351605013935 non-specific DNA binding site [nucleotide binding]; other site 351605013936 salt bridge; other site 351605013937 sequence-specific DNA binding site [nucleotide binding]; other site 351605013938 Domain of unknown function (DUF955); Region: DUF955; cl01076 351605013939 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 351605013940 ATP binding site [chemical binding]; other site 351605013941 putative Mg++ binding site [ion binding]; other site 351605013942 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 351605013943 DNA methylase; Region: N6_N4_Mtase; pfam01555 351605013944 DNA methylase; Region: N6_N4_Mtase; pfam01555 351605013945 Transposase IS200 like; Region: Y1_Tnp; pfam01797 351605013946 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 351605013947 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 351605013948 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 351605013949 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 351605013950 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 351605013951 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 351605013952 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 351605013953 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 351605013954 putative acyl-acceptor binding pocket; other site 351605013955 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 351605013956 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 351605013957 dimer interface [polypeptide binding]; other site 351605013958 ssDNA binding site [nucleotide binding]; other site 351605013959 tetramer (dimer of dimers) interface [polypeptide binding]; other site 351605013960 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 351605013961 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 351605013962 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 351605013963 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 351605013964 dimerization interface [polypeptide binding]; other site 351605013965 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 351605013966 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 351605013967 dimer interface [polypeptide binding]; other site 351605013968 putative CheW interface [polypeptide binding]; other site 351605013969 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 351605013970 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 351605013971 ATP binding site [chemical binding]; other site 351605013972 putative Mg++ binding site [ion binding]; other site 351605013973 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 351605013974 nucleotide binding region [chemical binding]; other site 351605013975 ATP-binding site [chemical binding]; other site 351605013976 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 351605013977 EamA-like transporter family; Region: EamA; pfam00892 351605013978 EamA-like transporter family; Region: EamA; pfam00892 351605013979 Protein of unknown function (DUF3187); Region: DUF3187; pfam11383 351605013980 F plasmid transfer operon, TraF, protein; Region: TraF_2; pfam13729 351605013981 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 351605013982 Transglycosylase; Region: Transgly; pfam00912 351605013983 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 351605013984 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 351605013985 IHF dimer interface [polypeptide binding]; other site 351605013986 IHF - DNA interface [nucleotide binding]; other site 351605013987 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 351605013988 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 351605013989 domain interfaces; other site 351605013990 active site 351605013991 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 351605013992 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 351605013993 active site 351605013994 FMN binding site [chemical binding]; other site 351605013995 substrate binding site [chemical binding]; other site 351605013996 putative catalytic residue [active] 351605013997 Predicted permeases [General function prediction only]; Region: COG0679 351605013998 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 351605013999 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 351605014000 G1 box; other site 351605014001 putative GEF interaction site [polypeptide binding]; other site 351605014002 GTP/Mg2+ binding site [chemical binding]; other site 351605014003 Switch I region; other site 351605014004 G2 box; other site 351605014005 G3 box; other site 351605014006 Switch II region; other site 351605014007 G4 box; other site 351605014008 G5 box; other site 351605014009 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 351605014010 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 351605014011 active site 351605014012 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 351605014013 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 351605014014 putative ATP binding site [chemical binding]; other site 351605014015 putative substrate interface [chemical binding]; other site 351605014016 Uncharacterized conserved protein [Function unknown]; Region: COG1633 351605014017 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 351605014018 diiron binding motif [ion binding]; other site 351605014019 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 351605014020 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 351605014021 N-acetyl-D-glucosamine binding site [chemical binding]; other site 351605014022 catalytic residue [active] 351605014023 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 351605014024 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605014025 active site 351605014026 phosphorylation site [posttranslational modification] 351605014027 intermolecular recognition site; other site 351605014028 dimerization interface [polypeptide binding]; other site 351605014029 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 351605014030 Walker A motif; other site 351605014031 ATP binding site [chemical binding]; other site 351605014032 Walker B motif; other site 351605014033 arginine finger; other site 351605014034 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 351605014035 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 351605014036 putative CheA interaction surface; other site 351605014037 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 351605014038 putative binding surface; other site 351605014039 active site 351605014040 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 351605014041 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 351605014042 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 351605014043 ATP binding site [chemical binding]; other site 351605014044 Mg2+ binding site [ion binding]; other site 351605014045 G-X-G motif; other site 351605014046 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 351605014047 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 351605014048 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 351605014049 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 351605014050 HDOD domain; Region: HDOD; pfam08668 351605014051 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 351605014052 Zn2+ binding site [ion binding]; other site 351605014053 Mg2+ binding site [ion binding]; other site 351605014054 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 351605014055 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351605014056 active site 351605014057 phosphorylation site [posttranslational modification] 351605014058 intermolecular recognition site; other site 351605014059 CheB methylesterase; Region: CheB_methylest; pfam01339 351605014060 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 351605014061 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 351605014062 S-adenosylmethionine binding site [chemical binding]; other site 351605014063 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 351605014064 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 351605014065 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 351605014066 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 351605014067 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 351605014068 trmE is a tRNA modification GTPase; Region: trmE; cd04164 351605014069 G1 box; other site 351605014070 GTP/Mg2+ binding site [chemical binding]; other site 351605014071 Switch I region; other site 351605014072 G2 box; other site 351605014073 Switch II region; other site 351605014074 G3 box; other site 351605014075 G4 box; other site 351605014076 G5 box; other site 351605014077 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 351605014078 membrane protein insertase, YidC/Oxa1 family, N-terminal domain; Region: yidC_nterm; TIGR03593 351605014079 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 351605014080 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 351605014081 Haemolytic domain; Region: Haemolytic; pfam01809 351605014082 ribonuclease P; Provisional; Region: rnpA; PRK14865 351605014083 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399