-- dump date 20140619_053416 -- class Genbank::misc_feature -- table misc_feature_note -- id note 227377000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 227377000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 227377000003 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 227377000004 Walker A motif; other site 227377000005 ATP binding site [chemical binding]; other site 227377000006 Walker B motif; other site 227377000007 arginine finger; other site 227377000008 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 227377000009 DnaA box-binding interface [nucleotide binding]; other site 227377000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 227377000011 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 227377000012 putative DNA binding surface [nucleotide binding]; other site 227377000013 dimer interface [polypeptide binding]; other site 227377000014 beta-clamp/clamp loader binding surface; other site 227377000015 beta-clamp/translesion DNA polymerase binding surface; other site 227377000016 recombination protein F; Reviewed; Region: recF; PRK00064 227377000017 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 227377000018 Walker A/P-loop; other site 227377000019 ATP binding site [chemical binding]; other site 227377000020 Q-loop/lid; other site 227377000021 ABC transporter signature motif; other site 227377000022 Walker B; other site 227377000023 D-loop; other site 227377000024 H-loop/switch region; other site 227377000025 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 227377000026 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 227377000027 ATP binding site [chemical binding]; other site 227377000028 Mg2+ binding site [ion binding]; other site 227377000029 G-X-G motif; other site 227377000030 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 227377000031 anchoring element; other site 227377000032 dimer interface [polypeptide binding]; other site 227377000033 ATP binding site [chemical binding]; other site 227377000034 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 227377000035 active site 227377000036 putative metal-binding site [ion binding]; other site 227377000037 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 227377000038 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 227377000039 Transposase; Region: DEDD_Tnp_IS110; pfam01548 227377000040 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 227377000041 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 227377000042 Protein of unknown function (DUF497); Region: DUF497; pfam04365 227377000043 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 227377000044 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 227377000045 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 227377000046 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 227377000047 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 227377000048 shikimate binding site; other site 227377000049 NAD(P) binding site [chemical binding]; other site 227377000050 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 227377000051 Protein of unknown function DUF47; Region: PhoU_div; pfam01865 227377000052 TIGR00153 family protein; Region: TIGR00153 227377000053 purine nucleoside phosphorylase; Provisional; Region: PRK08202 227377000054 Purine nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pnp; COG0005 227377000055 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 227377000056 intersubunit interface [polypeptide binding]; other site 227377000057 active site 227377000058 catalytic residue [active] 227377000059 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 227377000060 30S subunit binding site; other site 227377000061 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 227377000062 DNA-binding site [nucleotide binding]; DNA binding site 227377000063 RNA-binding motif; other site 227377000064 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 227377000065 carbon storage regulator; Provisional; Region: PRK01712 227377000066 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 227377000067 tetramer (dimer of dimers) interface [polypeptide binding]; other site 227377000068 active site 227377000069 dimer interface [polypeptide binding]; other site 227377000070 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 227377000071 putative acyl-acceptor binding pocket; other site 227377000072 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 227377000073 putative acyl-acceptor binding pocket; other site 227377000074 helix swapped region; other site 227377000075 Hydroxymethylglutaryl-coenzyme A reductase; Region: HMG-CoA_red; pfam00368 227377000076 homodimer interface [polypeptide binding]; other site 227377000077 substrate binding pocket [chemical binding]; other site 227377000078 catalytic residues [active] 227377000079 NADH/NADPH cofactor binding site [chemical binding]; other site 227377000080 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08063 227377000081 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 227377000082 NAD(P) binding site [chemical binding]; other site 227377000083 active site 227377000084 Protein of unknown function (DUF1658); Region: DUF1658; pfam07871 227377000085 Protein of unknown function (DUF1658); Region: DUF1658; pfam07871 227377000086 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 227377000087 acyl carrier protein; Provisional; Region: acpP; PRK00982 227377000088 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 227377000089 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 227377000090 dimer interface [polypeptide binding]; other site 227377000091 active site 227377000092 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 227377000093 active site 2 [active] 227377000094 active site 1 [active] 227377000095 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 227377000096 active site 1 [active] 227377000097 dimer interface [polypeptide binding]; other site 227377000098 active site 2 [active] 227377000099 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 227377000100 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 227377000101 dimer interface [polypeptide binding]; other site 227377000102 active site 227377000103 CoA binding pocket [chemical binding]; other site 227377000104 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 227377000105 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 227377000106 active site 227377000107 Zn binding site [ion binding]; other site 227377000108 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 227377000109 Transposase; Region: DEDD_Tnp_IS110; pfam01548 227377000110 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 227377000111 ferrochelatase; Reviewed; Region: hemH; PRK00035 227377000112 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 227377000113 C-terminal domain interface [polypeptide binding]; other site 227377000114 active site 227377000115 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 227377000116 active site 227377000117 N-terminal domain interface [polypeptide binding]; other site 227377000118 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 227377000119 active site 227377000120 dimerization interface [polypeptide binding]; other site 227377000121 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 227377000122 OmpA family; Region: OmpA; pfam00691 227377000123 ligand binding site [chemical binding]; other site 227377000124 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 227377000125 HlyD family secretion protein; Region: HlyD_3; pfam13437 227377000126 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DamX; COG3266 227377000127 Protein of unknown function (DUF2390); Region: DUF2390; cl02376 227377000128 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 227377000129 Chorismate lyase; Region: Chor_lyase; cl01230 227377000130 4-Hydroxybenzoate polyprenyltransferase; Region: PT_UbiA_COQ2; cd13959 227377000131 putative active site [active] 227377000132 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 227377000133 Outer membrane efflux protein; Region: OEP; pfam02321 227377000134 Outer membrane efflux protein; Region: OEP; pfam02321 227377000135 Sporulation related domain; Region: SPOR; pfam05036 227377000136 Protein of unknown function (DUF1658); Region: DUF1658; pfam07871 227377000137 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 227377000138 HSP70 interaction site [polypeptide binding]; other site 227377000139 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 227377000140 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 227377000141 Glycosyl transferases group 1; Region: Glycos_transf_1; cl19138 227377000142 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 227377000143 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 227377000144 ATP binding site [chemical binding]; other site 227377000145 Mg2+ binding site [ion binding]; other site 227377000146 G-X-G motif; other site 227377000147 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 227377000148 anchoring element; other site 227377000149 dimer interface [polypeptide binding]; other site 227377000150 ATP binding site [chemical binding]; other site 227377000151 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 227377000152 active site 227377000153 metal binding site [ion binding]; metal-binding site 227377000154 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 227377000155 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 227377000156 active site residue [active] 227377000157 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 227377000158 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 227377000159 Cell division protein ZapA; Region: ZapA; pfam05164 227377000160 TIGR02449 family protein; Region: TIGR02449 227377000161 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 227377000162 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 227377000163 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 227377000164 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 227377000165 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 227377000166 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 227377000167 active site 227377000168 Squalene epoxidase; Region: SE; cl17314 227377000169 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 227377000170 Squalene epoxidase; Region: SE; cl17314 227377000171 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 227377000172 prolyl-tRNA synthetase; Provisional; Region: PRK09194 227377000173 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 227377000174 dimer interface [polypeptide binding]; other site 227377000175 motif 1; other site 227377000176 active site 227377000177 motif 2; other site 227377000178 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 227377000179 putative deacylase active site [active] 227377000180 motif 3; other site 227377000181 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 227377000182 anticodon binding site; other site 227377000183 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 227377000184 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 227377000185 Sulfatase; Region: Sulfatase; cl19157 227377000186 Entericidin EcnA/B family; Region: Entericidin; cl02322 227377000187 2-pyrone-4,6-dicarboxylic acid (PDC) hydrolase hydrolyzes PDC to yield 4-oxalomesaconic acid (OMA) or its tautomer, 4-carboxy-2-hydroxymuconic acid (CHM). This reaction is part of the protocatechuate (PCA) 4,5-cleavage pathway. PCA is one of the most...; Region: PDC_hydrolase; cd01311 227377000188 active site 227377000189 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 227377000190 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 227377000191 Sulfatase; Region: Sulfatase; cl19157 227377000192 TolA protein; Region: tolA_full; TIGR02794 227377000193 TonB C terminal; Region: TonB_2; pfam13103 227377000194 translocation protein TolB; Provisional; Region: tolB; PRK04922 227377000195 TolB amino-terminal domain; Region: TolB_N; pfam04052 227377000196 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 227377000197 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 227377000198 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 227377000199 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 227377000200 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 227377000201 ligand binding site [chemical binding]; other site 227377000202 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 227377000203 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 227377000204 binding surface 227377000205 TPR motif; other site 227377000206 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, gammaproteobacterial type; Region: rSAM_QueE_gams; TIGR04349 227377000207 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 227377000208 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 227377000209 FeS/SAM binding site; other site 227377000210 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 227377000211 Clp amino terminal domain; Region: Clp_N; pfam02861 227377000212 Clp amino terminal domain; Region: Clp_N; pfam02861 227377000213 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 227377000214 Walker A motif; other site 227377000215 ATP binding site [chemical binding]; other site 227377000216 Walker B motif; other site 227377000217 arginine finger; other site 227377000218 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 227377000219 Walker A motif; other site 227377000220 ATP binding site [chemical binding]; other site 227377000221 Walker B motif; other site 227377000222 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 227377000223 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 227377000224 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 227377000225 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 227377000226 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 227377000227 PLD-like domain; Region: PLDc_2; pfam13091 227377000228 putative active site [active] 227377000229 catalytic site [active] 227377000230 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 227377000231 PLD-like domain; Region: PLDc_2; pfam13091 227377000232 putative active site [active] 227377000233 catalytic site [active] 227377000234 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 227377000235 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 227377000236 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 227377000237 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 227377000238 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 227377000239 dimerization interface [polypeptide binding]; other site 227377000240 active site 227377000241 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 227377000242 catalytic core [active] 227377000243 L-aspartate oxidase; Provisional; Region: PRK09077 227377000244 L-aspartate oxidase; Provisional; Region: PRK06175 227377000245 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 227377000246 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_5; cd05682 227377000247 hypothetical protein; Provisional; Region: PRK08201 227377000248 metal binding site [ion binding]; metal-binding site 227377000249 putative dimer interface [polypeptide binding]; other site 227377000250 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 227377000251 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 227377000252 Walker A/P-loop; other site 227377000253 ATP binding site [chemical binding]; other site 227377000254 Q-loop/lid; other site 227377000255 ABC transporter signature motif; other site 227377000256 Walker B; other site 227377000257 D-loop; other site 227377000258 H-loop/switch region; other site 227377000259 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 227377000260 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 227377000261 dimer interface [polypeptide binding]; other site 227377000262 conserved gate region; other site 227377000263 putative PBP binding loops; other site 227377000264 ABC-ATPase subunit interface; other site 227377000265 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 227377000266 8-amino-7-oxononanoate synthase; Region: bioF; TIGR00858 227377000267 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 227377000268 substrate-cofactor binding pocket; other site 227377000269 pyridoxal 5'-phosphate binding site [chemical binding]; other site 227377000270 catalytic residue [active] 227377000271 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 227377000272 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 227377000273 NAD(P) binding site [chemical binding]; other site 227377000274 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 227377000275 cell division protein MraZ; Reviewed; Region: PRK00326 227377000276 MraZ protein; Region: MraZ; pfam02381 227377000277 MraZ protein; Region: MraZ; pfam02381 227377000278 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 227377000279 Cell division protein FtsL; Region: FtsL; pfam04999 227377000280 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 227377000281 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 227377000282 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 227377000283 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 227377000284 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 227377000285 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 227377000286 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 227377000287 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 227377000288 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 227377000289 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 227377000290 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 227377000291 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 227377000292 Mg++ binding site [ion binding]; other site 227377000293 putative catalytic motif [active] 227377000294 putative substrate binding site [chemical binding]; other site 227377000295 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 227377000296 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 227377000297 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 227377000298 cell division protein FtsW; Region: ftsW; TIGR02614 227377000299 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 227377000300 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 227377000301 active site 227377000302 homodimer interface [polypeptide binding]; other site 227377000303 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 227377000304 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 227377000305 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 227377000306 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 227377000307 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 227377000308 FAD binding domain; Region: FAD_binding_4; cl19922 227377000309 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 227377000310 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 227377000311 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 227377000312 Cell division protein FtsQ; Region: FtsQ; pfam03799 227377000313 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 227377000314 active site clefts [active] 227377000315 zinc binding site [ion binding]; other site 227377000316 dimer interface [polypeptide binding]; other site 227377000317 cell division protein FtsA; Region: ftsA; TIGR01174 227377000318 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 227377000319 nucleotide binding site [chemical binding]; other site 227377000320 Cell division protein FtsA; Region: FtsA; pfam14450 227377000321 cell division protein FtsZ; Validated; Region: PRK09330 227377000322 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 227377000323 nucleotide binding site [chemical binding]; other site 227377000324 SulA interaction site; other site 227377000325 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 227377000326 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 227377000327 Protein of unknown function (DUF721); Region: DUF721; pfam05258 227377000328 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 227377000329 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 227377000330 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 227377000331 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 227377000332 nucleotide binding region [chemical binding]; other site 227377000333 SecA Wing and Scaffold domain; Region: SecA_SW; pfam07516 227377000334 SEC-C motif; Region: SEC-C; pfam02810 227377000335 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 227377000336 active site 227377000337 8-oxo-dGMP binding site [chemical binding]; other site 227377000338 nudix motif; other site 227377000339 metal binding site [ion binding]; metal-binding site 227377000340 Protein of unknown function (DUF1658); Region: DUF1658; pfam07871 227377000341 hypothetical protein; Provisional; Region: PRK05287 227377000342 7-cyano-7-deazaguanine reductase; Region: QueF; TIGR03138 227377000343 Nitrile reductase, 7-cyano-7-deazaguanine-reductase N-term; Region: QueF_N; pfam14819 227377000344 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 227377000345 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 227377000346 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 227377000347 CoA-binding site [chemical binding]; other site 227377000348 ATP-binding [chemical binding]; other site 227377000349 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 227377000350 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 227377000351 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 227377000352 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 227377000353 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 227377000354 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 227377000355 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 227377000356 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 227377000357 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 227377000358 Walker A motif; other site 227377000359 ATP binding site [chemical binding]; other site 227377000360 Walker B motif; other site 227377000361 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 227377000362 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 227377000363 CRISPR/Cas system-associated RAMP superfamily protein Cas6f; Region: Cas6_I-F; cd09674 227377000364 CRISPR/Cas system-associated RAMP superfamily protein Csy3; Region: Csy3_I-F; cd09677 227377000365 CRISPR/Cas system-associated protein Cas3/Cas2; Region: Cas3_Cas2_I-F; cd09673 227377000366 Condensation domain; Region: Condensation; cl19241 227377000367 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 227377000368 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 227377000369 substrate binding site [chemical binding]; other site 227377000370 oxyanion hole (OAH) forming residues; other site 227377000371 trimer interface [polypeptide binding]; other site 227377000372 acyl carrier protein; Validated; Region: PRK07117 227377000373 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 227377000374 active site 227377000375 ATP binding site [chemical binding]; other site 227377000376 substrate binding site [chemical binding]; other site 227377000377 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 227377000378 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 227377000379 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 227377000380 dimer interface [polypeptide binding]; other site 227377000381 conserved gate region; other site 227377000382 putative PBP binding loops; other site 227377000383 ABC-ATPase subunit interface; other site 227377000384 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 227377000385 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 227377000386 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 227377000387 Walker A/P-loop; other site 227377000388 ATP binding site [chemical binding]; other site 227377000389 Q-loop/lid; other site 227377000390 ABC transporter signature motif; other site 227377000391 Walker B; other site 227377000392 D-loop; other site 227377000393 H-loop/switch region; other site 227377000394 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 227377000395 Lysin motif; Region: LysM; smart00257 227377000396 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 227377000397 Peptidase family M23; Region: Peptidase_M23; pfam01551 227377000398 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 227377000399 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 227377000400 active site 227377000401 HIGH motif; other site 227377000402 dimer interface [polypeptide binding]; other site 227377000403 KMSKS motif; other site 227377000404 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 227377000405 RNA binding surface [nucleotide binding]; other site 227377000406 intervening sequence; CbIVS-1 227377000407 23S rRNA-intervening sequence protein; Region: 23S_rRNA_IVP; pfam05635 227377000408 LAGLIDADG endonuclease; Region: LAGLIDADG_1; pfam00961 227377000409 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 227377000410 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 227377000411 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 227377000412 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 227377000413 Major Facilitator Superfamily; Region: MFS_1; pfam07690 227377000414 putative substrate translocation pore; other site 227377000415 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 227377000416 Family of unknown function (DUF490); Region: DUF490; pfam04357 227377000417 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 227377000418 Surface antigen; Region: Bac_surface_Ag; pfam01103 227377000419 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 227377000420 ATP-binding site [chemical binding]; other site 227377000421 CoA-binding site [chemical binding]; other site 227377000422 Mg2+-binding site [ion binding]; other site 227377000423 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 227377000424 active site 227377000425 catalytic residues [active] 227377000426 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 227377000427 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 227377000428 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 227377000429 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 227377000430 active site 227377000431 HIGH motif; other site 227377000432 KMSKS motif; other site 227377000433 Transposase IS200 like; Region: Y1_Tnp; cl00848 227377000434 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 227377000435 NLPC_P60 stabilizing domain, N term; Region: N_NLPC_P60; pfam12912 227377000436 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 227377000437 SH3 domain of SH3b2 type; Region: SH3_7; pfam12914 227377000438 NlpC/P60 family; Region: NLPC_P60; cl17555 227377000439 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 227377000440 Cytochrome oxidase subunit II; Region: Cyto_ox_2; cl12219 227377000441 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 227377000442 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 227377000443 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 227377000444 elongation factor Tu; Reviewed; Region: PRK00049 227377000445 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 227377000446 G1 box; other site 227377000447 GEF interaction site [polypeptide binding]; other site 227377000448 GTP/Mg2+ binding site [chemical binding]; other site 227377000449 Switch I region; other site 227377000450 G2 box; other site 227377000451 G3 box; other site 227377000452 Switch II region; other site 227377000453 G4 box; other site 227377000454 G5 box; other site 227377000455 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 227377000456 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 227377000457 Antibiotic Binding Site [chemical binding]; other site 227377000458 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 227377000459 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 227377000460 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 227377000461 putative homodimer interface [polypeptide binding]; other site 227377000462 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 227377000463 heterodimer interface [polypeptide binding]; other site 227377000464 homodimer interface [polypeptide binding]; other site 227377000465 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 227377000466 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 227377000467 23S rRNA interface [nucleotide binding]; other site 227377000468 L7/L12 interface [polypeptide binding]; other site 227377000469 putative thiostrepton binding site; other site 227377000470 L25 interface [polypeptide binding]; other site 227377000471 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 227377000472 mRNA/rRNA interface [nucleotide binding]; other site 227377000473 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 227377000474 23S rRNA interface [nucleotide binding]; other site 227377000475 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 227377000476 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 227377000477 core dimer interface [polypeptide binding]; other site 227377000478 peripheral dimer interface [polypeptide binding]; other site 227377000479 L10 interface [polypeptide binding]; other site 227377000480 L11 interface [polypeptide binding]; other site 227377000481 putative EF-Tu interaction site [polypeptide binding]; other site 227377000482 putative EF-G interaction site [polypeptide binding]; other site 227377000483 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 227377000484 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 227377000485 RPB12 interaction site [polypeptide binding]; other site 227377000486 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; cl19478 227377000487 RPB1 interaction site [polypeptide binding]; other site 227377000488 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 227377000489 RPB10 interaction site [polypeptide binding]; other site 227377000490 RPB11 interaction site [polypeptide binding]; other site 227377000491 RPB3 interaction site [polypeptide binding]; other site 227377000492 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 227377000493 Largest subunit (beta') of bacterial DNA-dependent RNA polymerase (RNAP), N-terminal domain; Region: RNAP_beta'_N; cd01609 227377000494 beta and beta' interface [polypeptide binding]; other site 227377000495 beta' and sigma factor interface [polypeptide binding]; other site 227377000496 Zn-binding [ion binding]; other site 227377000497 active site region [active] 227377000498 catalytic site [active] 227377000499 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 227377000500 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 227377000501 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 227377000502 G-loop; other site 227377000503 DNA binding site [nucleotide binding] 227377000504 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 227377000505 S17 interaction site [polypeptide binding]; other site 227377000506 S8 interaction site; other site 227377000507 16S rRNA interaction site [nucleotide binding]; other site 227377000508 streptomycin interaction site [chemical binding]; other site 227377000509 23S rRNA interaction site [nucleotide binding]; other site 227377000510 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 227377000511 30S ribosomal protein S7; Validated; Region: PRK05302 227377000512 elongation factor G; Reviewed; Region: PRK00007 227377000513 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 227377000514 G1 box; other site 227377000515 putative GEF interaction site [polypeptide binding]; other site 227377000516 GTP/Mg2+ binding site [chemical binding]; other site 227377000517 Switch I region; other site 227377000518 G2 box; other site 227377000519 G3 box; other site 227377000520 Switch II region; other site 227377000521 G4 box; other site 227377000522 G5 box; other site 227377000523 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 227377000524 Elongation Factor G, domain II; Region: EFG_II; pfam14492 227377000525 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 227377000526 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 227377000527 elongation factor Tu; Reviewed; Region: PRK00049 227377000528 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 227377000529 G1 box; other site 227377000530 GEF interaction site [polypeptide binding]; other site 227377000531 GTP/Mg2+ binding site [chemical binding]; other site 227377000532 Switch I region; other site 227377000533 G2 box; other site 227377000534 G3 box; other site 227377000535 Switch II region; other site 227377000536 G4 box; other site 227377000537 G5 box; other site 227377000538 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 227377000539 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 227377000540 Antibiotic Binding Site [chemical binding]; other site 227377000541 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 227377000542 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 227377000543 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 227377000544 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 227377000545 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 227377000546 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 227377000547 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 227377000548 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 227377000549 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 227377000550 protein-rRNA interface [nucleotide binding]; other site 227377000551 putative translocon binding site; other site 227377000552 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 227377000553 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 227377000554 G-X-X-G motif; other site 227377000555 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 227377000556 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 227377000557 23S rRNA interface [nucleotide binding]; other site 227377000558 5S rRNA interface [nucleotide binding]; other site 227377000559 putative antibiotic binding site [chemical binding]; other site 227377000560 L25 interface [polypeptide binding]; other site 227377000561 L27 interface [polypeptide binding]; other site 227377000562 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 227377000563 23S rRNA interface [nucleotide binding]; other site 227377000564 putative translocon interaction site; other site 227377000565 signal recognition particle (SRP54) interaction site; other site 227377000566 L23 interface [polypeptide binding]; other site 227377000567 trigger factor interaction site; other site 227377000568 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 227377000569 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 227377000570 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 227377000571 RNA binding site [nucleotide binding]; other site 227377000572 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 227377000573 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 227377000574 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 227377000575 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 227377000576 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 227377000577 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 227377000578 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 227377000579 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 227377000580 5S rRNA interface [nucleotide binding]; other site 227377000581 23S rRNA interface [nucleotide binding]; other site 227377000582 L5 interface [polypeptide binding]; other site 227377000583 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 227377000584 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 227377000585 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 227377000586 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 227377000587 23S rRNA binding site [nucleotide binding]; other site 227377000588 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 227377000589 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 227377000590 SecY translocase; Region: SecY; pfam00344 227377000591 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 227377000592 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 227377000593 30S ribosomal protein S11; Validated; Region: PRK05309 227377000594 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 227377000595 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 227377000596 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 227377000597 RNA binding surface [nucleotide binding]; other site 227377000598 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 227377000599 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 227377000600 alphaNTD homodimer interface [polypeptide binding]; other site 227377000601 alphaNTD - beta interaction site [polypeptide binding]; other site 227377000602 alphaNTD - beta' interaction site [polypeptide binding]; other site 227377000603 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 227377000604 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 227377000605 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 227377000606 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 227377000607 putative substrate translocation pore; other site 227377000608 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 227377000609 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 227377000610 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 227377000611 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 227377000612 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 227377000613 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 227377000614 dimer interface [polypeptide binding]; other site 227377000615 ssDNA binding site [nucleotide binding]; other site 227377000616 tetramer (dimer of dimers) interface [polypeptide binding]; other site 227377000617 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 227377000618 Major Facilitator Superfamily; Region: MFS_1; pfam07690 227377000619 putative substrate translocation pore; other site 227377000620 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 227377000621 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 227377000622 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 227377000623 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 227377000624 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 227377000625 substrate binding site [chemical binding]; other site 227377000626 active site 227377000627 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 227377000628 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 227377000629 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 227377000630 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 227377000631 Amidinotransferase; Region: Amidinotransf; cl19186 227377000632 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 227377000633 active site 227377000634 DNA polymerase IV; Validated; Region: PRK02406 227377000635 DNA binding site [nucleotide binding] 227377000636 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 227377000637 heme binding pocket [chemical binding]; other site 227377000638 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 227377000639 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 227377000640 poly(A) polymerase; Region: pcnB; TIGR01942 227377000641 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 227377000642 active site 227377000643 NTP binding site [chemical binding]; other site 227377000644 metal binding triad [ion binding]; metal-binding site 227377000645 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 227377000646 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 227377000647 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 227377000648 catalytic center binding site [active] 227377000649 ATP binding site [chemical binding]; other site 227377000650 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 227377000651 active site 227377000652 (T/H)XGH motif; other site 227377000653 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 227377000654 Ribosomal protein L33; Region: Ribosomal_L33; pfam00471 227377000655 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 227377000656 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 227377000657 trimer interface [polypeptide binding]; other site 227377000658 active site 227377000659 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 227377000660 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 227377000661 active site 227377000662 substrate binding site [chemical binding]; other site 227377000663 metal binding site [ion binding]; metal-binding site 227377000664 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 227377000665 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 227377000666 active site 227377000667 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 227377000668 putative active site [active] 227377000669 putative catalytic site [active] 227377000670 putative DNA binding site [nucleotide binding]; other site 227377000671 putative phosphate binding site [ion binding]; other site 227377000672 metal binding site A [ion binding]; metal-binding site 227377000673 putative AP binding site [nucleotide binding]; other site 227377000674 putative metal binding site B [ion binding]; other site 227377000675 glutamate racemase; Provisional; Region: PRK00865 227377000676 ribonuclease PH; Reviewed; Region: rph; PRK00173 227377000677 Ribonuclease PH; Region: RNase_PH_bact; cd11362 227377000678 hexamer interface [polypeptide binding]; other site 227377000679 active site 227377000680 hypothetical protein; Provisional; Region: PRK11820 227377000681 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 227377000682 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 227377000683 Guanylate kinase; Region: Guanylate_kin; pfam00625 227377000684 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 227377000685 catalytic site [active] 227377000686 G-X2-G-X-G-K; other site 227377000687 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 227377000688 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 227377000689 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 227377000690 Zn2+ binding site [ion binding]; other site 227377000691 Mg2+ binding site [ion binding]; other site 227377000692 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 227377000693 synthetase active site [active] 227377000694 NTP binding site [chemical binding]; other site 227377000695 metal binding site [ion binding]; metal-binding site 227377000696 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 227377000697 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 227377000698 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 227377000699 homotrimer interaction site [polypeptide binding]; other site 227377000700 putative active site [active] 227377000701 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 227377000702 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 227377000703 generic binding surface II; other site 227377000704 ssDNA binding site; other site 227377000705 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 227377000706 ATP binding site [chemical binding]; other site 227377000707 putative Mg++ binding site [ion binding]; other site 227377000708 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 227377000709 nucleotide binding region [chemical binding]; other site 227377000710 ATP-binding site [chemical binding]; other site 227377000711 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 227377000712 heat shock protein 90; Provisional; Region: PRK05218 227377000713 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 227377000714 ATP binding site [chemical binding]; other site 227377000715 Mg2+ binding site [ion binding]; other site 227377000716 G-X-G motif; other site 227377000717 Hsp90 protein; Region: HSP90; pfam00183 227377000718 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 227377000719 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 227377000720 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 227377000721 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 227377000722 homodimer interface [polypeptide binding]; other site 227377000723 NADP binding site [chemical binding]; other site 227377000724 substrate binding site [chemical binding]; other site 227377000725 Protein of unknown function (DUF1658); Region: DUF1658; pfam07871 227377000726 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 227377000727 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 227377000728 N-acetyl-D-glucosamine binding site [chemical binding]; other site 227377000729 catalytic residue [active] 227377000730 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 227377000731 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 227377000732 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 227377000733 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 227377000734 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 227377000735 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 227377000736 DNA methylase; Region: N6_N4_Mtase; cl17433 227377000737 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 227377000738 RNA/DNA hybrid binding site [nucleotide binding]; other site 227377000739 active site 227377000740 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 227377000741 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 227377000742 active site 227377000743 catalytic site [active] 227377000744 substrate binding site [chemical binding]; other site 227377000745 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 227377000746 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 227377000747 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 227377000748 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 227377000749 acyl-CoA synthetase; Validated; Region: PRK05850 227377000750 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 227377000751 acyl-activating enzyme (AAE) consensus motif; other site 227377000752 active site 227377000753 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 227377000754 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 227377000755 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 227377000756 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 227377000757 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 227377000758 ThiC-associated domain; Region: ThiC-associated; pfam13667 227377000759 ThiC family; Region: ThiC; pfam01964 227377000760 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 227377000761 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 227377000762 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 227377000763 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 227377000764 thiS-thiF/thiG interaction site; other site 227377000765 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 227377000766 ThiS interaction site; other site 227377000767 putative active site [active] 227377000768 tetramer interface [polypeptide binding]; other site 227377000769 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 227377000770 dimer interface [polypeptide binding]; other site 227377000771 HMP-P kinase/thiamin-monophosphate pyrophosphorylase; Region: PLN02898 227377000772 substrate binding site [chemical binding]; other site 227377000773 ATP binding site [chemical binding]; other site 227377000774 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 227377000775 thiamine phosphate binding site [chemical binding]; other site 227377000776 active site 227377000777 pyrophosphate binding site [ion binding]; other site 227377000778 HAD superfamily, subfamily IIIB (Acid phosphatase); Region: Acid_phosphat_B; pfam03767 227377000779 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 227377000780 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 227377000781 purine monophosphate binding site [chemical binding]; other site 227377000782 dimer interface [polypeptide binding]; other site 227377000783 putative catalytic residues [active] 227377000784 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 227377000785 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 227377000786 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 227377000787 aminopeptidase N, Escherichia coli type; Region: pepN_proteo; TIGR02414 227377000788 active site 227377000789 Zn binding site [ion binding]; other site 227377000790 Domain of unknown function (DUF4351); Region: DUF4351; pfam14261 227377000791 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 227377000792 active site 227377000793 ADP/pyrophosphate binding site [chemical binding]; other site 227377000794 dimerization interface [polypeptide binding]; other site 227377000795 allosteric effector site; other site 227377000796 fructose-1,6-bisphosphate binding site; other site 227377000797 xylulokinase; Provisional; Region: PRK15027 227377000798 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 227377000799 N- and C-terminal domain interface [polypeptide binding]; other site 227377000800 active site 227377000801 MgATP binding site [chemical binding]; other site 227377000802 catalytic site [active] 227377000803 metal binding site [ion binding]; metal-binding site 227377000804 xylulose binding site [chemical binding]; other site 227377000805 homodimer interface [polypeptide binding]; other site 227377000806 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 227377000807 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 227377000808 putative substrate translocation pore; other site 227377000809 phosphoglycolate phosphatase; Provisional; Region: PRK13222 227377000810 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 227377000811 active site 227377000812 motif I; other site 227377000813 motif II; other site 227377000814 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 227377000815 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 227377000816 S-adenosylmethionine binding site [chemical binding]; other site 227377000817 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 227377000818 putative binding surface; other site 227377000819 active site 227377000820 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 227377000821 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 227377000822 putative inner membrane peptidase; Provisional; Region: PRK11778 227377000823 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 227377000824 tandem repeat interface [polypeptide binding]; other site 227377000825 oligomer interface [polypeptide binding]; other site 227377000826 active site residues [active] 227377000827 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 227377000828 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 227377000829 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 227377000830 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 227377000831 metal binding site [ion binding]; metal-binding site 227377000832 dimer interface [polypeptide binding]; other site 227377000833 phosphate:H+ symporter; Region: 2A0109; TIGR00887 227377000834 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 227377000835 putative substrate translocation pore; other site 227377000836 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 227377000837 dimer interface [polypeptide binding]; other site 227377000838 phosphorylation site [posttranslational modification] 227377000839 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 227377000840 ATP binding site [chemical binding]; other site 227377000841 Mg2+ binding site [ion binding]; other site 227377000842 G-X-G motif; other site 227377000843 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 227377000844 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 227377000845 active site 227377000846 phosphorylation site [posttranslational modification] 227377000847 intermolecular recognition site; other site 227377000848 dimerization interface [polypeptide binding]; other site 227377000849 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 227377000850 DNA binding site [nucleotide binding] 227377000851 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; cl19645 227377000852 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 227377000853 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 227377000854 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 227377000855 putative substrate translocation pore; other site 227377000856 Fic/DOC family; Region: Fic; pfam02661 227377000857 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 227377000858 putative active site [active] 227377000859 putative catalytic site [active] 227377000860 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 227377000861 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 227377000862 amidase catalytic site [active] 227377000863 Zn binding residues [ion binding]; other site 227377000864 substrate binding site [chemical binding]; other site 227377000865 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 227377000866 GrpB protein; Region: GrpB; pfam04229 227377000867 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 227377000868 substrate binding pocket [chemical binding]; other site 227377000869 chain length determination region; other site 227377000870 substrate-Mg2+ binding site; other site 227377000871 catalytic residues [active] 227377000872 aspartate-rich region 1; other site 227377000873 active site lid residues [active] 227377000874 aspartate-rich region 2; other site 227377000875 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 227377000876 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 227377000877 Transposase; Region: DEDD_Tnp_IS110; pfam01548 227377000878 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 227377000879 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 227377000880 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 227377000881 Obg family GTPase CgtA; Region: Obg_CgtA; TIGR02729 227377000882 GTP1/OBG; Region: GTP1_OBG; pfam01018 227377000883 Obg GTPase; Region: Obg; cd01898 227377000884 G1 box; other site 227377000885 GTP/Mg2+ binding site [chemical binding]; other site 227377000886 Switch I region; other site 227377000887 G2 box; other site 227377000888 G3 box; other site 227377000889 Switch II region; other site 227377000890 G4 box; other site 227377000891 G5 box; other site 227377000892 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 227377000893 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 227377000894 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 227377000895 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 227377000896 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 227377000897 active site 227377000898 Riboflavin kinase; Region: Flavokinase; smart00904 227377000899 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 227377000900 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 227377000901 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 227377000902 active site 227377000903 HIGH motif; other site 227377000904 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 227377000905 KMSKS motif; other site 227377000906 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 227377000907 tRNA binding surface [nucleotide binding]; other site 227377000908 anticodon binding site; other site 227377000909 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 227377000910 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 227377000911 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 227377000912 multidrug resistance protein D; Provisional; Region: emrD; PRK11652 227377000913 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 227377000914 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 227377000915 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 227377000916 nucleoside/Zn binding site; other site 227377000917 dimer interface [polypeptide binding]; other site 227377000918 catalytic motif [active] 227377000919 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 227377000920 pyridoxal 5'-phosphate binding site [chemical binding]; other site 227377000921 catalytic residue [active] 227377000922 Catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases; Region: CE4_NodB_like_1; cd10960 227377000923 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 227377000924 NodB motif; other site 227377000925 putative active site [active] 227377000926 putative catalytic site [active] 227377000927 putative Zn binding site [ion binding]; other site 227377000928 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 227377000929 tetramerization interface [polypeptide binding]; other site 227377000930 active site 227377000931 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 227377000932 active site 227377000933 nucleotide binding site [chemical binding]; other site 227377000934 HIGH motif; other site 227377000935 KMSKS motif; other site 227377000936 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 227377000937 oligomerization interface [polypeptide binding]; other site 227377000938 active site 227377000939 metal binding site [ion binding]; metal-binding site 227377000940 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 227377000941 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 227377000942 This domain is found in peptide chain release factors; Region: PCRF; smart00937 227377000943 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 227377000944 RF-1 domain; Region: RF-1; pfam00472 227377000945 hypothetical protein; Provisional; Region: PRK09256 227377000946 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 227377000947 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 227377000948 dimer interface [polypeptide binding]; other site 227377000949 putative anticodon binding site; other site 227377000950 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 227377000951 motif 1; other site 227377000952 active site 227377000953 motif 2; other site 227377000954 motif 3; other site 227377000955 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 227377000956 Aminomethyltransferase folate-binding domain; Region: GCV_T; cl01893 227377000957 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 227377000958 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 227377000959 Major Facilitator Superfamily; Region: MFS_1; pfam07690 227377000960 putative substrate translocation pore; other site 227377000961 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 227377000962 Mechanosensitive ion channel; Region: MS_channel; pfam00924 227377000963 Protein of unknown function (DUF1658); Region: DUF1658; pfam07871 227377000964 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl17418 227377000965 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 227377000966 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 227377000967 DNA binding site [nucleotide binding] 227377000968 active site 227377000969 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 227377000970 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 227377000971 16S rRNA processing protein RimM; Region: 16S_RimM; TIGR02273 227377000972 RimM N-terminal domain; Region: RimM; pfam01782 227377000973 PRC-barrel domain; Region: PRC; pfam05239 227377000974 30S ribosomal protein S16; Provisional; Region: rpsP; PRK14523 227377000975 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 227377000976 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 227377000977 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 227377000978 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 227377000979 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 227377000980 signal recognition particle protein; Provisional; Region: PRK10867 227377000981 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 227377000982 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 227377000983 P loop; other site 227377000984 GTP binding site [chemical binding]; other site 227377000985 Signal peptide binding domain; Region: SRP_SPB; pfam02978 227377000986 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 227377000987 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 227377000988 Domain of unknown function DUF21; Region: DUF21; pfam01595 227377000989 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 227377000990 Transporter associated domain; Region: CorC_HlyC; smart01091 227377000991 Type II transport protein GspH; Region: GspH; pfam12019 227377000992 adenylate kinase; Reviewed; Region: adk; PRK00279 227377000993 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 227377000994 AMP-binding site [chemical binding]; other site 227377000995 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 227377000996 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 227377000997 catalytic residues [active] 227377000998 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 227377000999 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 227377001000 CobD/Cbib protein; Region: CobD_Cbib; cl00561 227377001001 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 227377001002 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 227377001003 dimer interface [polypeptide binding]; other site 227377001004 TPP-binding site [chemical binding]; other site 227377001005 Transketolase, pyrimidine binding domain; Region: Transket_pyr; smart00861 227377001006 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide acyltransferase (E2) component, and related enzymes [Energy production and conversion]; Region: AceF; COG0508 227377001007 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 227377001008 E3 interaction surface; other site 227377001009 lipoyl attachment site [posttranslational modification]; other site 227377001010 e3 binding domain; Region: E3_binding; pfam02817 227377001011 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 227377001012 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 227377001013 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 227377001014 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 227377001015 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 227377001016 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 227377001017 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 227377001018 S-adenosylmethionine binding site [chemical binding]; other site 227377001019 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4627 227377001020 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 227377001021 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 227377001022 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 227377001023 active site 227377001024 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 227377001025 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 227377001026 ATP binding site [chemical binding]; other site 227377001027 putative Mg++ binding site [ion binding]; other site 227377001028 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 227377001029 nucleotide binding region [chemical binding]; other site 227377001030 ATP-binding site [chemical binding]; other site 227377001031 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 227377001032 HRDC domain; Region: HRDC; pfam00570 227377001033 DNA-binding proteins similar to HU domains; Region: HU_like; cd13834 227377001034 putative DNA binding site [nucleotide binding]; other site 227377001035 putative dimer interface [polypeptide binding]; other site 227377001036 valyl-tRNA synthetase; Provisional; Region: valS; PRK14900 227377001037 Protein of unknown function (DUF3175); Region: DUF3175; pfam11373 227377001038 Uncharacterized conserved protein [Function unknown]; Region: COG2835 227377001039 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 227377001040 Ligand binding site; other site 227377001041 oligomer interface; other site 227377001042 arginine repressor; Provisional; Region: PRK05066 227377001043 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 227377001044 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 227377001045 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 227377001046 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 227377001047 Walker A/P-loop; other site 227377001048 ATP binding site [chemical binding]; other site 227377001049 Q-loop/lid; other site 227377001050 ABC transporter signature motif; other site 227377001051 Walker B; other site 227377001052 D-loop; other site 227377001053 H-loop/switch region; other site 227377001054 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 227377001055 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 227377001056 substrate binding pocket [chemical binding]; other site 227377001057 membrane-bound complex binding site; other site 227377001058 hinge residues; other site 227377001059 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 227377001060 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 227377001061 dimer interface [polypeptide binding]; other site 227377001062 conserved gate region; other site 227377001063 putative PBP binding loops; other site 227377001064 ABC-ATPase subunit interface; other site 227377001065 ABC-type arginine/histidine transport system, permease component [Amino acid transport and metabolism]; Region: ArtM; COG4160 227377001066 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 227377001067 dimer interface [polypeptide binding]; other site 227377001068 conserved gate region; other site 227377001069 putative PBP binding loops; other site 227377001070 ABC-ATPase subunit interface; other site 227377001071 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 227377001072 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 227377001073 homodimer interface [polypeptide binding]; other site 227377001074 oligonucleotide binding site [chemical binding]; other site 227377001075 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 227377001076 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 227377001077 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 227377001078 RNA binding surface [nucleotide binding]; other site 227377001079 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 227377001080 active site 227377001081 putative protein phosphatase; Region: PHA02239 227377001082 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 227377001083 active site 227377001084 metal binding site [ion binding]; metal-binding site 227377001085 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cd00541 227377001086 dimerization interface [polypeptide binding]; other site 227377001087 substrate binding site [chemical binding]; other site 227377001088 active site 227377001089 calcium binding site [ion binding]; other site 227377001090 hypothetical protein; Provisional; Region: PRK08609 227377001091 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 227377001092 active site 227377001093 primer binding site [nucleotide binding]; other site 227377001094 NTP binding site [chemical binding]; other site 227377001095 metal binding triad [ion binding]; metal-binding site 227377001096 Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; Region: PHP_PolX; cd07436 227377001097 active site 227377001098 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 227377001099 putative phosphate acyltransferase; Provisional; Region: PRK05331 227377001100 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 227377001101 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 227377001102 dimer interface [polypeptide binding]; other site 227377001103 active site 227377001104 CoA binding pocket [chemical binding]; other site 227377001105 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 227377001106 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 227377001107 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 227377001108 NAD(P) binding site [chemical binding]; other site 227377001109 homotetramer interface [polypeptide binding]; other site 227377001110 homodimer interface [polypeptide binding]; other site 227377001111 active site 227377001112 acyl carrier protein; Provisional; Region: acpP; PRK00982 227377001113 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 227377001114 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 227377001115 dimer interface [polypeptide binding]; other site 227377001116 active site 227377001117 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 227377001118 dimerization interface [polypeptide binding]; other site 227377001119 thymidylate kinase; Validated; Region: tmk; PRK00698 227377001120 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 227377001121 TMP-binding site; other site 227377001122 ATP-binding site [chemical binding]; other site 227377001123 DNA polymerase III subunit delta'; Validated; Region: PRK05707 227377001124 DNA polymerase III subunit delta'; Validated; Region: PRK08485 227377001125 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 227377001126 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 227377001127 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 227377001128 active site 227377001129 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 227377001130 glutamine synthetase; Region: PLN02284 227377001131 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 227377001132 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 227377001133 POT family; Region: PTR2; cl17359 227377001134 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 227377001135 putative substrate translocation pore; other site 227377001136 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cl00217 227377001137 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 227377001138 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 227377001139 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 227377001140 DHH family; Region: DHH; pfam01368 227377001141 DHHA1 domain; Region: DHHA1; pfam02272 227377001142 Domain of unknown function (DUF4351); Region: DUF4351; pfam14261 227377001143 Trp operon repressor; Provisional; Region: PRK01381 227377001144 Protein of unknown function (DUF1658); Region: DUF1658; pfam07871 227377001145 Fructose-1,6-bisphosphatase; Region: FBPase_3; pfam01950 227377001146 Ceramidase; Region: Ceramidase; pfam05875 227377001147 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 227377001148 Major Facilitator Superfamily; Region: MFS_1; pfam07690 227377001149 putative substrate translocation pore; other site 227377001150 aspartate aminotransferase; Provisional; Region: PRK05764 227377001151 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 227377001152 pyridoxal 5'-phosphate binding site [chemical binding]; other site 227377001153 homodimer interface [polypeptide binding]; other site 227377001154 catalytic residue [active] 227377001155 excinuclease ABC subunit B; Provisional; Region: PRK05298 227377001156 Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes; Region: Motor_domain; cl00286 227377001157 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 227377001158 ATP-binding site [chemical binding]; other site 227377001159 ATP binding site [chemical binding]; other site 227377001160 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 227377001161 nucleotide binding region [chemical binding]; other site 227377001162 ATP-binding site [chemical binding]; other site 227377001163 Ultra-violet resistance protein B; Region: UvrB; pfam12344 227377001164 UvrB/uvrC motif; Region: UVR; pfam02151 227377001165 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 227377001166 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 227377001167 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 227377001168 active site 227377001169 catalytic residues [active] 227377001170 metal binding site [ion binding]; metal-binding site 227377001171 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 227377001172 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 227377001173 active site 227377001174 putative substrate binding pocket [chemical binding]; other site 227377001175 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 227377001176 Transposase; Region: DEDD_Tnp_IS110; pfam01548 227377001177 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 227377001178 DNA gyrase subunit A; Validated; Region: PRK05560 227377001179 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 227377001180 CAP-like domain; other site 227377001181 active site 227377001182 primary dimer interface [polypeptide binding]; other site 227377001183 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 227377001184 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 227377001185 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 227377001186 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 227377001187 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 227377001188 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 227377001189 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 227377001190 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 227377001191 catalytic residue [active] 227377001192 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 227377001193 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 227377001194 hinge; other site 227377001195 active site 227377001196 cytidylate kinase; Provisional; Region: cmk; PRK00023 227377001197 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 227377001198 CMP-binding site; other site 227377001199 The sites determining sugar specificity; other site 227377001200 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 227377001201 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 227377001202 RNA binding site [nucleotide binding]; other site 227377001203 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 227377001204 RNA binding site [nucleotide binding]; other site 227377001205 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 227377001206 RNA binding site [nucleotide binding]; other site 227377001207 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec4; cd05689 227377001208 RNA binding site [nucleotide binding]; other site 227377001209 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 227377001210 RNA binding site [nucleotide binding]; other site 227377001211 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 227377001212 RNA binding site [nucleotide binding]; other site 227377001213 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 227377001214 tetratricopeptide repeat protein; Provisional; Region: PRK11788 227377001215 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 227377001216 binding surface 227377001217 TPR motif; other site 227377001218 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 227377001219 binding surface 227377001220 TPR motif; other site 227377001221 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 227377001222 active site 227377001223 dimer interface [polypeptide binding]; other site 227377001224 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 227377001225 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 227377001226 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 227377001227 Mg++ binding site [ion binding]; other site 227377001228 putative catalytic motif [active] 227377001229 substrate binding site [chemical binding]; other site 227377001230 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 227377001231 Sel1-like repeats; Region: SEL1; smart00671 227377001232 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DamX; COG3266 227377001233 Sporulation related domain; Region: SPOR; pfam05036 227377001234 Protein of unknown function (DUF1658); Region: DUF1658; pfam07871 227377001235 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 227377001236 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 227377001237 putative substrate translocation pore; other site 227377001238 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 227377001239 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 227377001240 Walker A/P-loop; other site 227377001241 ATP binding site [chemical binding]; other site 227377001242 Q-loop/lid; other site 227377001243 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; pfam06470 227377001244 Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits...; Region: Prefoldin; cl09111 227377001245 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 227377001246 ABC transporter signature motif; other site 227377001247 Walker B; other site 227377001248 D-loop; other site 227377001249 H-loop/switch region; other site 227377001250 ZipA, C-terminal FtsZ-binding domain; Region: ZipA_C; pfam04354 227377001251 FtsZ protein binding site [polypeptide binding]; other site 227377001252 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 227377001253 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 227377001254 nucleotide binding pocket [chemical binding]; other site 227377001255 K-X-D-G motif; other site 227377001256 catalytic site [active] 227377001257 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 227377001258 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 227377001259 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 227377001260 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 227377001261 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 227377001262 Dimer interface [polypeptide binding]; other site 227377001263 BRCT sequence motif; other site 227377001264 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 227377001265 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 227377001266 heat shock protein HtpX; Provisional; Region: PRK02870 227377001267 Tetratricopeptide repeat; Region: TPR_16; pfam13432 227377001268 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 227377001269 binding surface 227377001270 TPR motif; other site 227377001271 TPR repeat; Region: TPR_11; pfam13414 227377001272 TPR repeat; Region: TPR_11; pfam13414 227377001273 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 227377001274 binding surface 227377001275 TPR motif; other site 227377001276 TPR repeat; Region: TPR_11; pfam13414 227377001277 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 227377001278 binding surface 227377001279 TPR motif; other site 227377001280 TPR repeat; Region: TPR_11; pfam13414 227377001281 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 227377001282 binding surface 227377001283 TPR motif; other site 227377001284 Predicted methyltransferase (contains TPR repeat) [General function prediction only]; Region: COG4976 227377001285 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 227377001286 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 227377001287 S-adenosylmethionine binding site [chemical binding]; other site 227377001288 lytic murein transglycosylase B; Region: MltB; TIGR02282 227377001289 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 227377001290 N-acetyl-D-glucosamine binding site [chemical binding]; other site 227377001291 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 227377001292 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 227377001293 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 227377001294 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 227377001295 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 227377001296 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 227377001297 Transposase; Region: DEDD_Tnp_IS110; pfam01548 227377001298 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 227377001299 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 227377001300 active site 227377001301 (T/H)XGH motif; other site 227377001302 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; cl19912 227377001303 DNA polymerase III, delta subunit; Region: holA; TIGR01128 227377001304 Processivity clamp loader gamma complex DNA pol III C-term; Region: DNA_pol3_delt_C; pfam14840 227377001305 Lipopolysaccharide-assembly; Region: LptE; cl01125 227377001306 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 227377001307 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 227377001308 active site 227377001309 HIGH motif; other site 227377001310 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 227377001311 KMSKS motif; other site 227377001312 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 227377001313 tRNA binding surface [nucleotide binding]; other site 227377001314 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 227377001315 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 227377001316 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 227377001317 AAA domain; Region: AAA_14; pfam13173 227377001318 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 227377001319 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 227377001320 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 227377001321 putative active site [active] 227377001322 catalytic triad [active] 227377001323 putative dimer interface [polypeptide binding]; other site 227377001324 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 227377001325 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 227377001326 Transporter associated domain; Region: CorC_HlyC; smart01091 227377001327 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 227377001328 phosphoglycerate transporter family protein; Region: 2A0104; TIGR00881 227377001329 putative substrate translocation pore; other site 227377001330 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 227377001331 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 227377001332 PhoH-like protein; Region: PhoH; pfam02562 227377001333 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 227377001334 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 227377001335 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 227377001336 FeS/SAM binding site; other site 227377001337 TRAM domain; Region: TRAM; pfam01938 227377001338 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 227377001339 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 227377001340 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 227377001341 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 227377001342 interface (dimer of trimers) [polypeptide binding]; other site 227377001343 Substrate-binding/catalytic site; other site 227377001344 Zn-binding sites [ion binding]; other site 227377001345 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 227377001346 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 227377001347 active site 227377001348 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 227377001349 acetyl-CoA acetyltransferase; Provisional; Region: PRK08170 227377001350 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 227377001351 dimer interface [polypeptide binding]; other site 227377001352 active site 227377001353 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 227377001354 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 227377001355 substrate binding site [chemical binding]; other site 227377001356 oxyanion hole (OAH) forming residues; other site 227377001357 trimer interface [polypeptide binding]; other site 227377001358 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 227377001359 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 227377001360 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 227377001361 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 227377001362 Ligand binding site; other site 227377001363 Putative Catalytic site; other site 227377001364 DXD motif; other site 227377001365 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 227377001366 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 227377001367 uncharacterized YdjC-like family proteins from bacteria; Region: YdjC_like_3; cd10807 227377001368 putative active site [active] 227377001369 YdjC motif; other site 227377001370 Mg binding site [ion binding]; other site 227377001371 putative homodimer interface [polypeptide binding]; other site 227377001372 Ferredoxin [Energy production and conversion]; Region: COG1146 227377001373 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; cl19102 227377001374 4Fe-4S binding domain; Region: Fer4; pfam00037 227377001375 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 227377001376 BolA-like protein; Region: BolA; pfam01722 227377001377 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 227377001378 putative GSH binding site [chemical binding]; other site 227377001379 catalytic residues [active] 227377001380 putative bifunctional glutamate synthase subunit beta/2-polyprenylphenol hydroxylase; Validated; Region: PRK06567 227377001381 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; cl19102 227377001382 FAD/NAD binding domain (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)-dihydroorotate...; Region: DHOD_e_trans_like; cd06192 227377001383 FAD binding pocket [chemical binding]; other site 227377001384 FAD binding motif [chemical binding]; other site 227377001385 phosphate binding motif [ion binding]; other site 227377001386 beta-alpha-beta structure motif; other site 227377001387 NAD binding pocket [chemical binding]; other site 227377001388 Iron coordination center [ion binding]; other site 227377001389 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 227377001390 active site residue [active] 227377001391 quinolinate synthetase; Provisional; Region: PRK09375 227377001392 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 227377001393 dimer interface [polypeptide binding]; other site 227377001394 [2Fe-2S] cluster binding site [ion binding]; other site 227377001395 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 227377001396 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 227377001397 HemN family oxidoreductase; Provisional; Region: PRK05660 227377001398 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 227377001399 FeS/SAM binding site; other site 227377001400 HemN C-terminal domain; Region: HemN_C; pfam06969 227377001401 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 227377001402 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 227377001403 dimer interface [polypeptide binding]; other site 227377001404 ADP-ribose binding site [chemical binding]; other site 227377001405 active site 227377001406 nudix motif; other site 227377001407 metal binding site [ion binding]; metal-binding site 227377001408 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 227377001409 active site 227377001410 diphosphomevalonate decarboxylase; Region: mevDPdecarb; TIGR01240 227377001411 diphosphomevalonate decarboxylase; Region: PLN02407 227377001412 Isopentenyl diphosphate (IPP) isomerase, a member of the Nudix hydrolase superfamily, is a key enzyme in the isoprenoid biosynthetic pathway. Isoprenoids comprise a large family of natural products including sterols, carotenoids, dolichols and prenylated...; Region: IPP_Isomerase; cd02885 227377001413 Isopentenyldiphosphate isomerase [Lipid metabolism]; Region: Idi; COG1443 227377001414 active site 227377001415 metal binding site [ion binding]; metal-binding site 227377001416 nudix motif; other site 227377001417 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 227377001418 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 227377001419 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 227377001420 mevalonate kinase; Region: mevalon_kin; TIGR00549 227377001421 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 227377001422 Hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase; cl00205 227377001423 homodimer interface [polypeptide binding]; other site 227377001424 substrate binding pocket [chemical binding]; other site 227377001425 catalytic residues [active] 227377001426 NADH/NADPH cofactor binding site [chemical binding]; other site 227377001427 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 227377001428 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 227377001429 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 227377001430 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 227377001431 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 227377001432 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 227377001433 Surface antigen; Region: Bac_surface_Ag; pfam01103 227377001434 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 227377001435 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 227377001436 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 227377001437 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 227377001438 trimer interface [polypeptide binding]; other site 227377001439 active site 227377001440 UDP-GlcNAc binding site [chemical binding]; other site 227377001441 lipid binding site [chemical binding]; lipid-binding site 227377001442 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 227377001443 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 227377001444 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 227377001445 active site 227377001446 HAD-hyrolase-like; Region: Hydrolase_like; cl19142 227377001447 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 227377001448 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 227377001449 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 227377001450 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 227377001451 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 227377001452 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 227377001453 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 227377001454 nucleoside/Zn binding site; other site 227377001455 dimer interface [polypeptide binding]; other site 227377001456 catalytic motif [active] 227377001457 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 227377001458 dimer interface [polypeptide binding]; other site 227377001459 substrate binding site [chemical binding]; other site 227377001460 metal binding sites [ion binding]; metal-binding site 227377001461 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 227377001462 DNA-binding domain of Proline dehydrogenase; Region: Pro_dh-DNA_bdg; pfam14850 227377001463 Proline dehydrogenase; Region: Pro_dh; pfam01619 227377001464 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 227377001465 Glutamate binding site [chemical binding]; other site 227377001466 NAD binding site [chemical binding]; other site 227377001467 catalytic residues [active] 227377001468 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 227377001469 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 227377001470 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 227377001471 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 227377001472 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 227377001473 dimerization interface [polypeptide binding]; other site 227377001474 ATP binding site [chemical binding]; other site 227377001475 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 227377001476 dimerization interface [polypeptide binding]; other site 227377001477 ATP binding site [chemical binding]; other site 227377001478 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 227377001479 putative active site [active] 227377001480 catalytic triad [active] 227377001481 Uncharacterized conserved protein [Function unknown]; Region: COG3461 227377001482 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 227377001483 putative active site [active] 227377001484 heme pocket [chemical binding]; other site 227377001485 PAS fold; Region: PAS_4; pfam08448 227377001486 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 227377001487 putative active site [active] 227377001488 heme pocket [chemical binding]; other site 227377001489 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 227377001490 dimer interface [polypeptide binding]; other site 227377001491 phosphorylation site [posttranslational modification] 227377001492 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 227377001493 ATP binding site [chemical binding]; other site 227377001494 Mg2+ binding site [ion binding]; other site 227377001495 G-X-G motif; other site 227377001496 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 227377001497 active site 227377001498 phosphorylation site [posttranslational modification] 227377001499 intermolecular recognition site; other site 227377001500 dimerization interface [polypeptide binding]; other site 227377001501 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 227377001502 EamA-like transporter family; Region: EamA; pfam00892 227377001503 EamA-like transporter family; Region: EamA; pfam00892 227377001504 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 227377001505 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 227377001506 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 227377001507 E3 interaction surface; other site 227377001508 lipoyl attachment site [posttranslational modification]; other site 227377001509 e3 binding domain; Region: E3_binding; pfam02817 227377001510 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 227377001511 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 227377001512 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 227377001513 alpha subunit interface [polypeptide binding]; other site 227377001514 TPP binding site [chemical binding]; other site 227377001515 heterodimer interface [polypeptide binding]; other site 227377001516 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 227377001517 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 227377001518 TPP-binding site [chemical binding]; other site 227377001519 tetramer interface [polypeptide binding]; other site 227377001520 heterodimer interface [polypeptide binding]; other site 227377001521 phosphorylation loop region [posttranslational modification] 227377001522 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 227377001523 Glu/Leu/Phe/Val dehydrogenase, dimerization domain; Region: ELFV_dehydrog_N; pfam02812 227377001524 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 227377001525 NAD binding site [chemical binding]; other site 227377001526 Phe binding site; other site 227377001527 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 227377001528 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 227377001529 putative active site [active] 227377001530 catalytic site [active] 227377001531 putative metal binding site [ion binding]; other site 227377001532 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 227377001533 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 227377001534 catalytic motif [active] 227377001535 Zn binding site [ion binding]; other site 227377001536 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 227377001537 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 227377001538 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 227377001539 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 227377001540 Lumazine binding domain; Region: Lum_binding; pfam00677 227377001541 Lumazine binding domain; Region: Lum_binding; pfam00677 227377001542 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 227377001543 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 227377001544 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 227377001545 dimerization interface [polypeptide binding]; other site 227377001546 active site 227377001547 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 227377001548 homopentamer interface [polypeptide binding]; other site 227377001549 active site 227377001550 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 227377001551 hypothetical protein; Validated; Region: PRK00153 227377001552 recombination protein RecR; Reviewed; Region: recR; PRK00076 227377001553 RecR protein; Region: RecR; pfam02132 227377001554 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 227377001555 putative active site [active] 227377001556 putative metal-binding site [ion binding]; other site 227377001557 tetramer interface [polypeptide binding]; other site 227377001558 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; pfam02575 227377001559 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14958 227377001560 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 227377001561 Walker A motif; other site 227377001562 ATP binding site [chemical binding]; other site 227377001563 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; cl18944 227377001564 Walker B motif; other site 227377001565 arginine finger; other site 227377001566 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 227377001567 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 227377001568 AAA domain; Region: AAA_14; pfam13173 227377001569 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 227377001570 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 227377001571 Transposase [DNA replication, recombination, and repair]; Region: COG5433 227377001572 Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes; Region: Motor_domain; cl00286 227377001573 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 227377001574 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 227377001575 metal binding site [ion binding]; metal-binding site 227377001576 dimer interface [polypeptide binding]; other site 227377001577 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 227377001578 Tetrahydrodipicolinate N-succinyltransferase N-terminal; Region: THDPS_N_2; pfam14805 227377001579 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 227377001580 trimer interface [polypeptide binding]; other site 227377001581 active site 227377001582 substrate binding site [chemical binding]; other site 227377001583 CoA binding site [chemical binding]; other site 227377001584 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 227377001585 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 227377001586 ATP binding site [chemical binding]; other site 227377001587 Mg++ binding site [ion binding]; other site 227377001588 motif III; other site 227377001589 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 227377001590 nucleotide binding region [chemical binding]; other site 227377001591 ATP-binding site [chemical binding]; other site 227377001592 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 227377001593 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 227377001594 Substrate binding site; other site 227377001595 Cupin domain; Region: Cupin_2; cl17218 227377001596 Acid Phosphatase; Region: Acid_PPase; cl17256 227377001597 Histidinol phosphatase and related phosphatases [Amino acid transport and metabolism]; Region: HisB; COG0241 227377001598 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 227377001599 active site 227377001600 motif I; other site 227377001601 motif II; other site 227377001602 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 227377001603 dimer interface [polypeptide binding]; other site 227377001604 active site 227377001605 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 227377001606 active site 227377001607 intersubunit interactions; other site 227377001608 catalytic residue [active] 227377001609 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 227377001610 extended (e) SDRs; Region: SDR_e; cd08946 227377001611 NAD(P) binding site [chemical binding]; other site 227377001612 active site 227377001613 substrate binding site [chemical binding]; other site 227377001614 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 227377001615 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 227377001616 NAD(P) binding site [chemical binding]; other site 227377001617 active site 227377001618 N-terminal domain of RfaE; Region: RfaE_N; cd02172 227377001619 putative active site [active] 227377001620 (T/H)XGH motif; other site 227377001621 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 227377001622 putative ribose interaction site [chemical binding]; other site 227377001623 putative ADP binding site [chemical binding]; other site 227377001624 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 227377001625 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; cl19130 227377001626 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 227377001627 nucleotide sugar dehydrogenase; Region: NDP-sugDHase; TIGR03026 227377001628 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl19126 227377001629 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 227377001630 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 227377001631 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 227377001632 extended (e) SDRs; Region: SDR_e; cd08946 227377001633 NAD(P) binding site [chemical binding]; other site 227377001634 active site 227377001635 substrate binding site [chemical binding]; other site 227377001636 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 227377001637 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 227377001638 Methyltransferase domain; Region: Methyltransf_31; pfam13847 227377001639 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 227377001640 S-adenosylmethionine binding site [chemical binding]; other site 227377001641 Methyltransferase FkbM domain; Region: Methyltransf_21; pfam05050 227377001642 Sulfotransferase domain; Region: Sulfotransfer_1; cl19239 227377001643 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 227377001644 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 227377001645 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 227377001646 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 227377001647 NADP binding site [chemical binding]; other site 227377001648 active site 227377001649 putative substrate binding site [chemical binding]; other site 227377001650 GDP-mannose 4,6-dehydratase; Region: gmd; TIGR01472 227377001651 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 227377001652 NADP-binding site; other site 227377001653 homotetramer interface [polypeptide binding]; other site 227377001654 substrate binding site [chemical binding]; other site 227377001655 homodimer interface [polypeptide binding]; other site 227377001656 active site 227377001657 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 227377001658 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 227377001659 active site 227377001660 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 227377001661 Methyltransferase domain; Region: Methyltransf_23; pfam13489 227377001662 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 227377001663 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 227377001664 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 227377001665 alpha subunit interface [polypeptide binding]; other site 227377001666 TPP binding site [chemical binding]; other site 227377001667 heterodimer interface [polypeptide binding]; other site 227377001668 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 227377001669 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 227377001670 tetramer interface [polypeptide binding]; other site 227377001671 TPP-binding site [chemical binding]; other site 227377001672 heterodimer interface [polypeptide binding]; other site 227377001673 phosphorylation loop region [posttranslational modification] 227377001674 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 227377001675 active site 227377001676 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 227377001677 inhibitor-cofactor binding pocket; inhibition site 227377001678 pyridoxal 5'-phosphate binding site [chemical binding]; other site 227377001679 catalytic residue [active] 227377001680 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 227377001681 inhibitor-cofactor binding pocket; inhibition site 227377001682 pyridoxal 5'-phosphate binding site [chemical binding]; other site 227377001683 catalytic residue [active] 227377001684 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated; Region: PRK05537 227377001685 ATP-sulfurylase; Region: ATPS; cd00517 227377001686 active site 227377001687 HXXH motif; other site 227377001688 flexible loop; other site 227377001689 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 227377001690 ligand-binding site [chemical binding]; other site 227377001691 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 227377001692 active site 227377001693 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 227377001694 classical (c) SDRs; Region: SDR_c; cd05233 227377001695 NAD(P) binding site [chemical binding]; other site 227377001696 active site 227377001697 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 227377001698 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 227377001699 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 227377001700 Walker A/P-loop; other site 227377001701 ATP binding site [chemical binding]; other site 227377001702 Q-loop/lid; other site 227377001703 ABC transporter signature motif; other site 227377001704 Walker B; other site 227377001705 D-loop; other site 227377001706 H-loop/switch region; other site 227377001707 Domain of unknown function DUF20; Region: UPF0118; cl00465 227377001708 response regulator; Provisional; Region: PRK09483 227377001709 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 227377001710 active site 227377001711 phosphorylation site [posttranslational modification] 227377001712 intermolecular recognition site; other site 227377001713 dimerization interface [polypeptide binding]; other site 227377001714 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 227377001715 DNA binding residues [nucleotide binding] 227377001716 dimerization interface [polypeptide binding]; other site 227377001717 phosphate:H+ symporter; Region: 2A0109; TIGR00887 227377001718 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 227377001719 putative substrate translocation pore; other site 227377001720 Protein of unknown function (DUF3775); Region: DUF3775; pfam12616 227377001721 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 227377001722 Helix-turn-helix domain; Region: HTH_38; pfam13936 227377001723 Integrase core domain; Region: rve; pfam00665 227377001724 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 227377001725 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 227377001726 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 227377001727 Agmatinase and related proteins; Region: Agmatinase-like_2; cd11593 227377001728 putative active site [active] 227377001729 Mn binding site [ion binding]; other site 227377001730 deoxyhypusine synthase-like protein; Provisional; Region: PRK02492 227377001731 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 227377001732 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 227377001733 dimer interface [polypeptide binding]; other site 227377001734 active site 227377001735 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 227377001736 catalytic residues [active] 227377001737 substrate binding site [chemical binding]; other site 227377001738 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 227377001739 Helix-turn-helix domain; Region: HTH_38; pfam13936 227377001740 Integrase core domain; Region: rve; pfam00665 227377001741 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 227377001742 Permease; Region: Permease; pfam02405 227377001743 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 227377001744 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 227377001745 Walker A/P-loop; other site 227377001746 ATP binding site [chemical binding]; other site 227377001747 Q-loop/lid; other site 227377001748 ABC transporter signature motif; other site 227377001749 Walker B; other site 227377001750 D-loop; other site 227377001751 H-loop/switch region; other site 227377001752 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 227377001753 mce related protein; Region: MCE; pfam02470 227377001754 Protein of unknown function (DUF330); Region: DUF330; cl01135 227377001755 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 227377001756 trigger factor; Provisional; Region: tig; PRK01490 227377001757 Bacterial trigger factor protein (TF); Region: Trigger_N; pfam05697 227377001758 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 227377001759 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 227377001760 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 227377001761 oligomer interface [polypeptide binding]; other site 227377001762 active site residues [active] 227377001763 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 227377001764 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 227377001765 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 227377001766 Walker A motif; other site 227377001767 ATP binding site [chemical binding]; other site 227377001768 Walker B motif; other site 227377001769 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 227377001770 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 227377001771 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 227377001772 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 227377001773 Walker A motif; other site 227377001774 ATP binding site [chemical binding]; other site 227377001775 Walker B motif; other site 227377001776 arginine finger; other site 227377001777 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 227377001778 Putative modulator of DNA gyrase; Region: PmbA_TldD; cl19356 227377001779 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 227377001780 dimerization domain swap beta strand [polypeptide binding]; other site 227377001781 regulatory protein interface [polypeptide binding]; other site 227377001782 active site 227377001783 regulatory phosphorylation site [posttranslational modification]; other site 227377001784 HPr kinase/phosphorylase; Provisional; Region: PRK05428 227377001785 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 227377001786 Hpr binding site; other site 227377001787 active site 227377001788 homohexamer subunit interaction site [polypeptide binding]; other site 227377001789 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 227377001790 30S subunit binding site; other site 227377001791 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 227377001792 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 227377001793 Walker A/P-loop; other site 227377001794 ATP binding site [chemical binding]; other site 227377001795 Q-loop/lid; other site 227377001796 ABC transporter signature motif; other site 227377001797 Walker B; other site 227377001798 D-loop; other site 227377001799 H-loop/switch region; other site 227377001800 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 227377001801 OstA-like protein; Region: OstA; pfam03968 227377001802 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 227377001803 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 227377001804 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 227377001805 active site 227377001806 motif I; other site 227377001807 motif II; other site 227377001808 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 227377001809 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 227377001810 putative active site [active] 227377001811 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 227377001812 EPSP synthase (3-phosphoshikimate 1-carboxyvinyltransferase); Region: EPSP_synthase; pfam00275 227377001813 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 227377001814 hinge; other site 227377001815 active site 227377001816 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 227377001817 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 227377001818 MMPL family; Region: MMPL; cl14618 227377001819 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 227377001820 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 227377001821 HlyD family secretion protein; Region: HlyD_3; pfam13437 227377001822 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 227377001823 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 227377001824 PDZ domain of trypsin-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 227377001825 protein binding site [polypeptide binding]; other site 227377001826 PDZ domain of trypsin-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 227377001827 protein binding site [polypeptide binding]; other site 227377001828 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 227377001829 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 227377001830 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 227377001831 RNA binding surface [nucleotide binding]; other site 227377001832 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 227377001833 active site 227377001834 Outer membrane lipoprotein; Region: YfiO; pfam13525 227377001835 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 227377001836 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 227377001837 active site 227377001838 phosphorylation site [posttranslational modification] 227377001839 intermolecular recognition site; other site 227377001840 dimerization interface [polypeptide binding]; other site 227377001841 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 227377001842 sequence-specific DNA binding site [nucleotide binding]; other site 227377001843 salt bridge; other site 227377001844 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 227377001845 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 227377001846 acyl-activating enzyme (AAE) consensus motif; other site 227377001847 putative AMP binding site [chemical binding]; other site 227377001848 putative active site [active] 227377001849 putative CoA binding site [chemical binding]; other site 227377001850 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 227377001851 putative substrate translocation pore; other site 227377001852 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 227377001853 active site 227377001854 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 227377001855 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 227377001856 catalytic triad [active] 227377001857 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 227377001858 AAA domain; Region: AAA_14; pfam13173 227377001859 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 227377001860 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 227377001861 tetramer interface [polypeptide binding]; other site 227377001862 active site 227377001863 Mg2+/Mn2+ binding site [ion binding]; other site 227377001864 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 227377001865 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 227377001866 dimer interface [polypeptide binding]; other site 227377001867 active site 227377001868 citrylCoA binding site [chemical binding]; other site 227377001869 oxalacetate/citrate binding site [chemical binding]; other site 227377001870 coenzyme A binding site [chemical binding]; other site 227377001871 catalytic triad [active] 227377001872 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 227377001873 putative dimer interface [polypeptide binding]; other site 227377001874 PspC domain; Region: PspC; pfam04024 227377001875 Predicted transcriptional regulators [Transcription]; Region: COG1725 227377001876 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 227377001877 DNA-binding site [nucleotide binding]; DNA binding site 227377001878 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 227377001879 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 227377001880 Walker A/P-loop; other site 227377001881 ATP binding site [chemical binding]; other site 227377001882 Q-loop/lid; other site 227377001883 ABC transporter signature motif; other site 227377001884 Walker B; other site 227377001885 D-loop; other site 227377001886 H-loop/switch region; other site 227377001887 response regulator; Provisional; Region: PRK09483 227377001888 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 227377001889 active site 227377001890 phosphorylation site [posttranslational modification] 227377001891 intermolecular recognition site; other site 227377001892 dimerization interface [polypeptide binding]; other site 227377001893 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 227377001894 DNA binding residues [nucleotide binding] 227377001895 dimerization interface [polypeptide binding]; other site 227377001896 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 227377001897 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 227377001898 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 227377001899 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 227377001900 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 227377001901 acyl-activating enzyme (AAE) consensus motif; other site 227377001902 AMP binding site [chemical binding]; other site 227377001903 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 227377001904 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 227377001905 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 227377001906 active site 227377001907 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 227377001908 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 227377001909 short chain dehydrogenase; Region: adh_short; pfam00106 227377001910 putative NADP binding site [chemical binding]; other site 227377001911 active site 227377001912 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 227377001913 PAS domain; Region: PAS_9; pfam13426 227377001914 PAS fold; Region: PAS_4; pfam08448 227377001915 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 227377001916 dimer interface [polypeptide binding]; other site 227377001917 phosphorylation site [posttranslational modification] 227377001918 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 227377001919 ATP binding site [chemical binding]; other site 227377001920 Mg2+ binding site [ion binding]; other site 227377001921 G-X-G motif; other site 227377001922 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 227377001923 active site 227377001924 phosphorylation site [posttranslational modification] 227377001925 intermolecular recognition site; other site 227377001926 dimerization interface [polypeptide binding]; other site 227377001927 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 227377001928 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 227377001929 Major Facilitator Superfamily; Region: MFS_1; pfam07690 227377001930 putative substrate translocation pore; other site 227377001931 YcaO-like family; Region: YcaO; cl19253 227377001932 Cytochrome B561, N terminal; Region: CytochromB561_N; pfam09786 227377001933 GTP cyclohydrolase I; Region: GTP_cyclohydroI; pfam01227 227377001934 active site 227377001935 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 227377001936 nucleotide binding site/active site [active] 227377001937 HIT family signature motif; other site 227377001938 catalytic residue [active] 227377001939 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 227377001940 Major Facilitator Superfamily; Region: MFS_1; pfam07690 227377001941 putative substrate translocation pore; other site 227377001942 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 227377001943 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 227377001944 HlyD family secretion protein; Region: HlyD_3; pfam13437 227377001945 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 227377001946 active site 227377001947 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 227377001948 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 227377001949 Coenzyme A binding pocket [chemical binding]; other site 227377001950 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 227377001951 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 227377001952 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 227377001953 HlyD family secretion protein; Region: HlyD_3; pfam13437 227377001954 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 227377001955 MMPL family; Region: MMPL; cl14618 227377001956 MMPL family; Region: MMPL; cl14618 227377001957 Beta-lactamase; Region: Beta-lactamase; pfam00144 227377001958 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 227377001959 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 227377001960 active site 227377001961 HIGH motif; other site 227377001962 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 227377001963 KMSKS motif; other site 227377001964 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 227377001965 tRNA binding surface [nucleotide binding]; other site 227377001966 anticodon binding site; other site 227377001967 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 227377001968 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 227377001969 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; cl12074 227377001970 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 227377001971 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 227377001972 G1 box; other site 227377001973 putative GEF interaction site [polypeptide binding]; other site 227377001974 GTP/Mg2+ binding site [chemical binding]; other site 227377001975 Switch I region; other site 227377001976 G2 box; other site 227377001977 G3 box; other site 227377001978 Switch II region; other site 227377001979 G4 box; other site 227377001980 G5 box; other site 227377001981 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 227377001982 Elongation Factor G, domain II; Region: EFG_II; pfam14492 227377001983 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 227377001984 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 227377001985 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 227377001986 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 227377001987 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 227377001988 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 227377001989 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 227377001990 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 227377001991 C-terminal domain interface [polypeptide binding]; other site 227377001992 GSH binding site (G-site) [chemical binding]; other site 227377001993 dimer interface [polypeptide binding]; other site 227377001994 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 227377001995 N-terminal domain interface [polypeptide binding]; other site 227377001996 dimer interface [polypeptide binding]; other site 227377001997 substrate binding pocket (H-site) [chemical binding]; other site 227377001998 Fic family protein [Function unknown]; Region: COG3177 227377001999 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 227377002000 Fic/DOC family; Region: Fic; pfam02661 227377002001 malate dehydrogenase; Provisional; Region: PRK13529 227377002002 Malic enzyme, N-terminal domain; Region: malic; pfam00390 227377002003 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 227377002004 NAD(P) binding site [chemical binding]; other site 227377002005 adenylosuccinate lyase; Provisional; Region: PRK09285 227377002006 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 227377002007 tetramer interface [polypeptide binding]; other site 227377002008 active site 227377002009 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 227377002010 inhibitor-cofactor binding pocket; inhibition site 227377002011 pyridoxal 5'-phosphate binding site [chemical binding]; other site 227377002012 catalytic residue [active] 227377002013 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 227377002014 transcriptional activator RfaH; Region: RfaH; TIGR01955 227377002015 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 227377002016 heterodimer interface [polypeptide binding]; other site 227377002017 homodimer interface [polypeptide binding]; other site 227377002018 Transcriptional regulators [Transcription]; Region: MarR; COG1846 227377002019 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 227377002020 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 227377002021 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 227377002022 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 227377002023 Bacterial transferase hexapeptide (six repeats); Region: Hexapep; pfam00132 227377002024 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 227377002025 putative trimer interface [polypeptide binding]; other site 227377002026 putative active site [active] 227377002027 putative substrate binding site [chemical binding]; other site 227377002028 putative CoA binding site [chemical binding]; other site 227377002029 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 227377002030 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 227377002031 NAD(P) binding site [chemical binding]; other site 227377002032 active site 227377002033 lipopolysaccharide biosynthesis protein RfbH; Provisional; Region: PRK15407 227377002034 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 227377002035 inhibitor-cofactor binding pocket; inhibition site 227377002036 pyridoxal 5'-phosphate binding site [chemical binding]; other site 227377002037 catalytic residue [active] 227377002038 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 227377002039 active site 227377002040 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 227377002041 dimer interface [polypeptide binding]; other site 227377002042 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 227377002043 Ligand Binding Site [chemical binding]; other site 227377002044 Molecular Tunnel; other site 227377002045 maltose O-acetyltransferase; Provisional; Region: PRK10092 227377002046 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 227377002047 trimer interface [polypeptide binding]; other site 227377002048 active site 227377002049 substrate binding site [chemical binding]; other site 227377002050 CoA binding site [chemical binding]; other site 227377002051 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 227377002052 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 227377002053 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 227377002054 Walker A/P-loop; other site 227377002055 ATP binding site [chemical binding]; other site 227377002056 Q-loop/lid; other site 227377002057 ABC transporter signature motif; other site 227377002058 Walker B; other site 227377002059 D-loop; other site 227377002060 H-loop/switch region; other site 227377002061 Methyltransferase domain; Region: Methyltransf_31; pfam13847 227377002062 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 227377002063 S-adenosylmethionine binding site [chemical binding]; other site 227377002064 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 227377002065 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 227377002066 FeS/SAM binding site; other site 227377002067 Iron-sulfur cluster-binding domain; Region: SPASM; pfam13186 227377002068 This family is most closely related to the GT1 family of glycosyltransferases. AmSD in Erwinia amylovora has been shown to be involved in the biosynthesis of amylovoran, the acidic exopolysaccharide acting as a virulence factor. This enzyme may be...; Region: GT1_amsD_like; cd03820 227377002069 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 227377002070 putative ADP-binding pocket [chemical binding]; other site 227377002071 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 227377002072 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 227377002073 putative ADP-binding pocket [chemical binding]; other site 227377002074 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 227377002075 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 227377002076 active site 227377002077 dimer interface [polypeptide binding]; other site 227377002078 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 227377002079 Ligand Binding Site [chemical binding]; other site 227377002080 Molecular Tunnel; other site 227377002081 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 227377002082 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 227377002083 putative ADP-binding pocket [chemical binding]; other site 227377002084 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 227377002085 active site 227377002086 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 227377002087 homodimer interface [polypeptide binding]; other site 227377002088 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 227377002089 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 227377002090 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 227377002091 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 227377002092 putative NAD(P) binding site [chemical binding]; other site 227377002093 active site 227377002094 putative substrate binding site [chemical binding]; other site 227377002095 UDP-glucose/GDP-mannose dehydrogenase family, NAD binding domain; Region: UDPG_MGDP_dh_N; pfam03721 227377002096 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 227377002097 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 227377002098 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 227377002099 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 227377002100 UDP-glucose/GDP-mannose dehydrogenase family, NAD binding domain; Region: UDPG_MGDP_dh_N; pfam03721 227377002101 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 227377002102 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 227377002103 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 227377002104 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 227377002105 NAD(P) binding site [chemical binding]; other site 227377002106 active site 227377002107 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 227377002108 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 227377002109 active site 227377002110 dimer interface [polypeptide binding]; other site 227377002111 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 227377002112 dimer interface [polypeptide binding]; other site 227377002113 active site 227377002114 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 227377002115 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 227377002116 active site 227377002117 tetramer interface; other site 227377002118 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 227377002119 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 227377002120 16S/18S rRNA binding site [nucleotide binding]; other site 227377002121 S13e-L30e interaction site [polypeptide binding]; other site 227377002122 25S rRNA binding site [nucleotide binding]; other site 227377002123 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 227377002124 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 227377002125 RNase E interface [polypeptide binding]; other site 227377002126 trimer interface [polypeptide binding]; other site 227377002127 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 227377002128 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 227377002129 RNase E interface [polypeptide binding]; other site 227377002130 trimer interface [polypeptide binding]; other site 227377002131 active site 227377002132 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 227377002133 putative nucleic acid binding region [nucleotide binding]; other site 227377002134 G-X-X-G motif; other site 227377002135 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 227377002136 RNA binding site [nucleotide binding]; other site 227377002137 domain interface; other site 227377002138 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 227377002139 active site 227377002140 dimer interfaces [polypeptide binding]; other site 227377002141 catalytic residues [active] 227377002142 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 227377002143 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 227377002144 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 227377002145 Walker A/P-loop; other site 227377002146 ATP binding site [chemical binding]; other site 227377002147 Q-loop/lid; other site 227377002148 ABC transporter signature motif; other site 227377002149 Walker B; other site 227377002150 D-loop; other site 227377002151 H-loop/switch region; other site 227377002152 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 227377002153 NAD synthetase; Provisional; Region: PRK13981 227377002154 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 227377002155 multimer interface [polypeptide binding]; other site 227377002156 active site 227377002157 catalytic triad [active] 227377002158 protein interface 1 [polypeptide binding]; other site 227377002159 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 227377002160 homodimer interface [polypeptide binding]; other site 227377002161 NAD binding pocket [chemical binding]; other site 227377002162 ATP binding pocket [chemical binding]; other site 227377002163 Mg binding site [ion binding]; other site 227377002164 active-site loop [active] 227377002165 Xcc1710_like family, specific to proteobacteria. Xcc1710 is a hypothetical protein from Xanthomonas campestris pv. campestris str. ATCC 33913, similar to Mth938, a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome; Region: Xcc1710_like; cd05560 227377002166 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 227377002167 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 227377002168 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 227377002169 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 227377002170 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 227377002171 replicative DNA helicase; Region: DnaB; TIGR00665 227377002172 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 227377002173 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 227377002174 Walker A motif; other site 227377002175 ATP binding site [chemical binding]; other site 227377002176 Walker B motif; other site 227377002177 DNA binding loops [nucleotide binding] 227377002178 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 227377002179 protein-splicing catalytic site; other site 227377002180 thioester formation/cholesterol transfer; other site 227377002181 Intein splicing domain; Region: Intein_splicing; pfam14890 227377002182 alanine racemase; Reviewed; Region: alr; PRK00053 227377002183 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 227377002184 active site 227377002185 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 227377002186 substrate binding site [chemical binding]; other site 227377002187 catalytic residues [active] 227377002188 dimer interface [polypeptide binding]; other site 227377002189 Flavinator of succinate dehydrogenase; Region: Sdh5; pfam03937 227377002190 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 227377002191 ATP-binding site [chemical binding]; other site 227377002192 Sugar specificity; other site 227377002193 Pyrimidine base specificity; other site 227377002194 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 227377002195 Smr domain; Region: Smr; pfam01713 227377002196 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 227377002197 Tetramer interface [polypeptide binding]; other site 227377002198 active site 227377002199 FMN-binding site [chemical binding]; other site 227377002200 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 227377002201 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; pfam01118 227377002202 Semialdehyde dehydrogenase, dimerization domain; Region: Semialdhyde_dhC; pfam02774 227377002203 molybdopterin biosynthesis-like protein MoeZ; Validated; Region: PRK07878 227377002204 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 227377002205 ATP binding site [chemical binding]; other site 227377002206 substrate interface [chemical binding]; other site 227377002207 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 227377002208 active site residue [active] 227377002209 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 227377002210 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 227377002211 G1 box; other site 227377002212 putative GEF interaction site [polypeptide binding]; other site 227377002213 GTP/Mg2+ binding site [chemical binding]; other site 227377002214 Switch I region; other site 227377002215 G2 box; other site 227377002216 G3 box; other site 227377002217 Switch II region; other site 227377002218 G4 box; other site 227377002219 G5 box; other site 227377002220 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 227377002221 Elongation Factor G, domain II; Region: EFG_II; pfam14492 227377002222 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 227377002223 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 227377002224 active site 227377002225 motif I; other site 227377002226 motif II; other site 227377002227 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 227377002228 Flavoprotein; Region: Flavoprotein; cl19190 227377002229 DNA / pantothenate metabolizm flavoprotein; Region: DFP; pfam04127 227377002230 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 227377002231 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 227377002232 Thioredoxin; Region: Thioredoxin_4; pfam13462 227377002233 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 227377002234 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 227377002235 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 227377002236 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 227377002237 dimerization interface 3.5A [polypeptide binding]; other site 227377002238 active site 227377002239 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 227377002240 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 227377002241 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 227377002242 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DedD; COG3147 227377002243 Sporulation related domain; Region: SPOR; pfam05036 227377002244 Colicin V production protein; Region: Colicin_V; cl00567 227377002245 amidophosphoribosyltransferase; Provisional; Region: PRK09246 227377002246 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 227377002247 active site 227377002248 tetramer interface [polypeptide binding]; other site 227377002249 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 227377002250 active site 227377002251 Thyroglobulin type I repeats.; The N-terminal region of human thyroglobulin contains 11 type-1 repeats TY repeats are proposed to be inhibitors of cysteine proteases; Region: TY; cd00191 227377002252 protease interaction site; other site 227377002253 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 227377002254 Dihydrouridine synthase (Dus); Region: Dus; pfam01207 227377002255 FMN binding site [chemical binding]; other site 227377002256 active site 227377002257 catalytic residues [active] 227377002258 substrate binding site [chemical binding]; other site 227377002259 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 227377002260 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 227377002261 Major Facilitator Superfamily; Region: MFS_1; pfam07690 227377002262 putative substrate translocation pore; other site 227377002263 YCII-related domain; Region: YCII; cl00999 227377002264 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 227377002265 intracellular septation protein A; Reviewed; Region: PRK00259 227377002266 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 227377002267 Phosphotransferase enzyme family; Region: APH; pfam01636 227377002268 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 227377002269 active site 227377002270 ATP binding site [chemical binding]; other site 227377002271 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 227377002272 substrate binding site [chemical binding]; other site 227377002273 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 227377002274 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 227377002275 CoenzymeA binding site [chemical binding]; other site 227377002276 subunit interaction site [polypeptide binding]; other site 227377002277 PHB binding site; other site 227377002278 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 227377002279 putative catalytic site [active] 227377002280 putative metal binding site [ion binding]; other site 227377002281 putative phosphate binding site [ion binding]; other site 227377002282 Protein of unknown function (DUF342); Region: DUF342; cl19219 227377002283 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 227377002284 Di-iron ligands [ion binding]; other site 227377002285 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 227377002286 putative substrate translocation pore; other site 227377002287 Major Facilitator Superfamily; Region: MFS_1; pfam07690 227377002288 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 227377002289 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 227377002290 S-adenosylmethionine binding site [chemical binding]; other site 227377002291 lytic murein transglycosylase; Region: MltB_2; TIGR02283 227377002292 Transglycosylase SLT domain; Region: SLT_2; pfam13406 227377002293 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 227377002294 N-acetyl-D-glucosamine binding site [chemical binding]; other site 227377002295 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 227377002296 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 227377002297 NAD-binding of NADP-dependent 3-hydroxyisobutyrate dehydrogenase; Region: NAD_binding_11; pfam14833 227377002298 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 227377002299 tetrameric interface [polypeptide binding]; other site 227377002300 NAD binding site [chemical binding]; other site 227377002301 catalytic residues [active] 227377002302 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 227377002303 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 227377002304 Pyridoxine 5'-phosphate oxidase C-terminal dimerization region; Region: PNPOx_C; pfam10590 227377002305 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 227377002306 classical (c) SDRs; Region: SDR_c; cd05233 227377002307 NAD(P) binding site [chemical binding]; other site 227377002308 active site 227377002309 3-methyladenine DNA glycosylase; Reviewed; Region: PRK00802 227377002310 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 227377002311 FAD dependent oxidoreductase; Region: DAO; pfam01266 227377002312 glycerol kinase; Provisional; Region: glpK; PRK00047 227377002313 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 227377002314 N- and C-terminal domain interface [polypeptide binding]; other site 227377002315 active site 227377002316 MgATP binding site [chemical binding]; other site 227377002317 catalytic site [active] 227377002318 metal binding site [ion binding]; metal-binding site 227377002319 glycerol binding site [chemical binding]; other site 227377002320 homotetramer interface [polypeptide binding]; other site 227377002321 homodimer interface [polypeptide binding]; other site 227377002322 FBP binding site [chemical binding]; other site 227377002323 protein IIAGlc interface [polypeptide binding]; other site 227377002324 inner membrane transport permease; Provisional; Region: PRK15066 227377002325 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 227377002326 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 227377002327 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 227377002328 Walker A/P-loop; other site 227377002329 ATP binding site [chemical binding]; other site 227377002330 Q-loop/lid; other site 227377002331 ABC transporter signature motif; other site 227377002332 Walker B; other site 227377002333 D-loop; other site 227377002334 H-loop/switch region; other site 227377002335 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 227377002336 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 227377002337 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 227377002338 Protein of unknown function (DUF3573); Region: DUF3573; pfam12097 227377002339 AsmA family; Region: AsmA; pfam05170 227377002340 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 227377002341 adenine DNA glycosylase; Provisional; Region: PRK10880 227377002342 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 227377002343 minor groove reading motif; other site 227377002344 helix-hairpin-helix signature motif; other site 227377002345 substrate binding pocket [chemical binding]; other site 227377002346 active site 227377002347 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 227377002348 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 227377002349 DNA binding and oxoG recognition site [nucleotide binding] 227377002350 oxidative damage protection protein; Provisional; Region: PRK05408 227377002351 Member of the Rhodanese Homology Domain superfamily. This CD includes the putative rhodanese-like protein, Psp2, of Yersinia pestis biovar Medievalis and other similar uncharacterized proteins; Region: RHOD_PspE2; cd01521 227377002352 active site residue [active] 227377002353 Virulence protein RhuM family; Region: Virulence_RhuM; cl19850 227377002354 Fic/DOC family; Region: Fic; pfam02661 227377002355 CRISPR/Cas system-associated protein Csy1; Region: Csy1_I-F; cl09829 227377002356 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 227377002357 amino acid transporter; Region: 2A0306; TIGR00909 227377002358 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 227377002359 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 227377002360 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 227377002361 putative NADH binding site [chemical binding]; other site 227377002362 putative active site [active] 227377002363 nudix motif; other site 227377002364 putative metal binding site [ion binding]; other site 227377002365 response regulator; Provisional; Region: PRK09483 227377002366 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 227377002367 active site 227377002368 phosphorylation site [posttranslational modification] 227377002369 intermolecular recognition site; other site 227377002370 dimerization interface [polypeptide binding]; other site 227377002371 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 227377002372 DNA binding residues [nucleotide binding] 227377002373 dimerization interface [polypeptide binding]; other site 227377002374 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 227377002375 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 227377002376 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 227377002377 putative substrate translocation pore; other site 227377002378 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 227377002379 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 227377002380 non-specific DNA binding site [nucleotide binding]; other site 227377002381 salt bridge; other site 227377002382 sequence-specific DNA binding site [nucleotide binding]; other site 227377002383 Cupin domain; Region: Cupin_2; cl17218 227377002384 Domain of unknown function (DUF3330); Region: DUF3330; pfam11809 227377002385 acetoacetyl-CoA reductase; Provisional; Region: PRK12824 227377002386 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 227377002387 NADP binding site [chemical binding]; other site 227377002388 homodimer interface [polypeptide binding]; other site 227377002389 active site 227377002390 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 227377002391 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 227377002392 catalytic triad [active] 227377002393 3-deoxy-D-manno-oct-2-ulosonic acid (Kdo) hydroxylase; Region: Kdo_hydroxy; pfam11004 227377002394 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 227377002395 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 227377002396 Cytochrome oxidase subunit II; Region: Cyto_ox_2; cl12219 227377002397 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 227377002398 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 227377002399 PLD-like domain; Region: PLDc_2; pfam13091 227377002400 putative active site [active] 227377002401 catalytic site [active] 227377002402 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 227377002403 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 227377002404 quinone interaction residues [chemical binding]; other site 227377002405 active site 227377002406 catalytic residues [active] 227377002407 FMN binding site [chemical binding]; other site 227377002408 substrate binding site [chemical binding]; other site 227377002409 isovaleryl-CoA dehydrogenase; Region: PLN02519 227377002410 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 227377002411 substrate binding site [chemical binding]; other site 227377002412 FAD binding site [chemical binding]; other site 227377002413 catalytic base [active] 227377002414 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 227377002415 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 227377002416 dimer interface [polypeptide binding]; other site 227377002417 active site 227377002418 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl19172 227377002419 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 227377002420 enoyl-CoA hydratase; Provisional; Region: PRK05995 227377002421 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 227377002422 substrate binding site [chemical binding]; other site 227377002423 oxyanion hole (OAH) forming residues; other site 227377002424 trimer interface [polypeptide binding]; other site 227377002425 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 227377002426 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 227377002427 ATP-grasp domain; Region: ATP-grasp_4; cl17255 227377002428 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 227377002429 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 227377002430 carboxyltransferase (CT) interaction site; other site 227377002431 biotinylation site [posttranslational modification]; other site 227377002432 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 227377002433 arogenate dehydrogenase; Region: PLN02256 227377002434 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 227377002435 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 227377002436 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 227377002437 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 227377002438 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 227377002439 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 227377002440 Sporulation related domain; Region: SPOR; pfam05036 227377002441 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 227377002442 ligand binding site [chemical binding]; other site 227377002443 active site 227377002444 UGI interface [polypeptide binding]; other site 227377002445 catalytic site [active] 227377002446 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 227377002447 active site 227377002448 catalytic residues [active] 227377002449 metal binding site [ion binding]; metal-binding site 227377002450 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 227377002451 Protoheme IX farnesyltransferase; Region: PT_UbiA_Cox10; cd13957 227377002452 putative active site [active] 227377002453 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 227377002454 GDP-binding site [chemical binding]; other site 227377002455 ACT binding site; other site 227377002456 IMP binding site; other site 227377002457 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 227377002458 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 227377002459 HflX GTPase family; Region: HflX; cd01878 227377002460 G1 box; other site 227377002461 GTP/Mg2+ binding site [chemical binding]; other site 227377002462 Switch I region; other site 227377002463 G2 box; other site 227377002464 G3 box; other site 227377002465 Switch II region; other site 227377002466 G4 box; other site 227377002467 G5 box; other site 227377002468 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 227377002469 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 227377002470 Walker A/P-loop; other site 227377002471 ATP binding site [chemical binding]; other site 227377002472 Q-loop/lid; other site 227377002473 ABC transporter signature motif; other site 227377002474 Walker B; other site 227377002475 D-loop; other site 227377002476 H-loop/switch region; other site 227377002477 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 227377002478 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 227377002479 FtsX-like permease family; Region: FtsX; pfam02687 227377002480 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 227377002481 Biotin operon repressor [Transcription]; Region: BirA; COG1654 227377002482 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 227377002483 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 227377002484 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 227377002485 AAA domain; Region: AAA_26; pfam13500 227377002486 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 227377002487 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 227377002488 S-adenosylmethionine binding site [chemical binding]; other site 227377002489 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 227377002490 Putative lysophospholipase; Region: Hydrolase_4; cl19140 227377002491 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 227377002492 8-amino-7-oxononanoate synthase; Region: bioF; TIGR00858 227377002493 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 227377002494 catalytic residue [active] 227377002495 biotin synthase; Region: bioB; TIGR00433 227377002496 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 227377002497 FeS/SAM binding site; other site 227377002498 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 227377002499 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 227377002500 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 227377002501 inhibitor-cofactor binding pocket; inhibition site 227377002502 pyridoxal 5'-phosphate binding site [chemical binding]; other site 227377002503 catalytic residue [active] 227377002504 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 227377002505 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 227377002506 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 227377002507 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 227377002508 AAA domain; Region: AAA_14; pfam13173 227377002509 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 227377002510 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 227377002511 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4994 227377002512 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; pfam08780 227377002513 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 227377002514 active site 227377002515 NTP binding site [chemical binding]; other site 227377002516 metal binding triad [ion binding]; metal-binding site 227377002517 antibiotic binding site [chemical binding]; other site 227377002518 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 227377002519 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 227377002520 putative NAD(P) binding site [chemical binding]; other site 227377002521 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 227377002522 Domain of unknown function DUF87; Region: DUF87; cl19135 227377002523 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 227377002524 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 227377002525 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 227377002526 catalytic residue [active] 227377002527 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 227377002528 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 227377002529 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 227377002530 active site 227377002531 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 227377002532 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 227377002533 Subunit I/III interface [polypeptide binding]; other site 227377002534 Subunit III/IV interface [polypeptide binding]; other site 227377002535 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 227377002536 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 227377002537 D-pathway; other site 227377002538 Putative ubiquinol binding site [chemical binding]; other site 227377002539 Low-spin heme (heme b) binding site [chemical binding]; other site 227377002540 Putative water exit pathway; other site 227377002541 Binuclear center (heme o3/CuB) [ion binding]; other site 227377002542 K-pathway; other site 227377002543 Putative proton exit pathway; other site 227377002544 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 227377002545 The cupredoxin domain of Ubiquinol oxidase subunit II; Region: CuRO_UO_II; cd04212 227377002546 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 227377002547 response regulator; Provisional; Region: PRK09483 227377002548 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 227377002549 active site 227377002550 phosphorylation site [posttranslational modification] 227377002551 intermolecular recognition site; other site 227377002552 dimerization interface [polypeptide binding]; other site 227377002553 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 227377002554 DNA binding residues [nucleotide binding] 227377002555 dimerization interface [polypeptide binding]; other site 227377002556 carbon storage regulator; Provisional; Region: PRK01712 227377002557 aspartate kinase; Reviewed; Region: PRK06635 227377002558 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 227377002559 putative nucleotide binding site [chemical binding]; other site 227377002560 putative catalytic residues [active] 227377002561 putative Mg ion binding site [ion binding]; other site 227377002562 putative aspartate binding site [chemical binding]; other site 227377002563 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 227377002564 putative allosteric regulatory site; other site 227377002565 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 227377002566 putative allosteric regulatory residue; other site 227377002567 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 227377002568 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 227377002569 motif 1; other site 227377002570 active site 227377002571 motif 2; other site 227377002572 motif 3; other site 227377002573 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 227377002574 Protein of unknown function (DUF1319); Region: DUF1319; pfam07028 227377002575 DHHA1 domain; Region: DHHA1; pfam02272 227377002576 recombination regulator RecX; Reviewed; Region: recX; PRK00117 227377002577 recombinase A; Provisional; Region: recA; PRK09354 227377002578 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 227377002579 hexamer interface [polypeptide binding]; other site 227377002580 Walker A motif; other site 227377002581 ATP binding site [chemical binding]; other site 227377002582 Walker B motif; other site 227377002583 Competence-damaged protein; Region: CinA; pfam02464 227377002584 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 227377002585 MutS domain I; Region: MutS_I; pfam01624 227377002586 MutS domain II; Region: MutS_II; pfam05188 227377002587 MutS domain III; Region: MutS_III; pfam05192 227377002588 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 227377002589 Walker A/P-loop; other site 227377002590 ATP binding site [chemical binding]; other site 227377002591 Q-loop/lid; other site 227377002592 ABC transporter signature motif; other site 227377002593 Walker B; other site 227377002594 D-loop; other site 227377002595 H-loop/switch region; other site 227377002596 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 227377002597 Ligand binding site; other site 227377002598 Putative Catalytic site; other site 227377002599 DXD motif; other site 227377002600 Domain of unknown function (DUF1704); Region: DUF1704; pfam08014 227377002601 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 227377002602 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 227377002603 RNA binding surface [nucleotide binding]; other site 227377002604 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 227377002605 probable active site [active] 227377002606 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 227377002607 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 227377002608 Protein of unknown function (DUF1601); Region: DUF1601; pfam07671 227377002609 Protein of unknown function (DUF1601); Region: DUF1601; pfam07671 227377002610 Protein of unknown function (DUF1601); Region: DUF1601; pfam07671 227377002611 Protein of unknown function (DUF1601); Region: DUF1601; pfam07671 227377002612 Protein of unknown function (DUF1601); Region: DUF1601; pfam07671 227377002613 Protein of unknown function (DUF1601); Region: DUF1601; pfam07671 227377002614 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 227377002615 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 227377002616 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 227377002617 transmembrane helices; other site 227377002618 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 227377002619 TrkA-C domain; Region: TrkA_C; pfam02080 227377002620 TrkA-C domain; Region: TrkA_C; pfam02080 227377002621 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 227377002622 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 227377002623 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 227377002624 Ligand Binding Site [chemical binding]; other site 227377002625 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 227377002626 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 227377002627 metal binding site [ion binding]; metal-binding site 227377002628 nucleotidyl binding site; other site 227377002629 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 227377002630 Predicted membrane protein [Function unknown]; Region: COG2259 227377002631 Queuine tRNA-ribosyltransferase; Region: TGT; cl19224 227377002632 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 227377002633 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 227377002634 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 227377002635 active site 227377002636 MASE1; Region: MASE1; cl17823 227377002637 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 227377002638 Mechanosensitive ion channel; Region: MS_channel; pfam00924 227377002639 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 227377002640 Transposase; Region: DEDD_Tnp_IS110; pfam01548 227377002641 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 227377002642 beta-hexosaminidase; Provisional; Region: PRK05337 227377002643 Domain of unknown function (DUF1820); Region: DUF1820; pfam08850 227377002644 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 227377002645 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 227377002646 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 227377002647 membrane-attack complex/perforin (MACPF) Superfamily; Provisional; Region: PTZ00482 227377002648 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 227377002649 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 227377002650 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 227377002651 ATP binding site [chemical binding]; other site 227377002652 Mg2+ binding site [ion binding]; other site 227377002653 G-X-G motif; other site 227377002654 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 227377002655 ATP binding site [chemical binding]; other site 227377002656 MutL C terminal dimerization domain; Region: MutL_C; pfam08676 227377002657 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 227377002658 PAS fold; Region: PAS_3; pfam08447 227377002659 putative active site [active] 227377002660 heme pocket [chemical binding]; other site 227377002661 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 227377002662 PAS fold; Region: PAS_3; pfam08447 227377002663 putative active site [active] 227377002664 heme pocket [chemical binding]; other site 227377002665 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 227377002666 dimer interface [polypeptide binding]; other site 227377002667 phosphorylation site [posttranslational modification] 227377002668 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 227377002669 ATP binding site [chemical binding]; other site 227377002670 Mg2+ binding site [ion binding]; other site 227377002671 G-X-G motif; other site 227377002672 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 227377002673 active site 227377002674 phosphorylation site [posttranslational modification] 227377002675 intermolecular recognition site; other site 227377002676 dimerization interface [polypeptide binding]; other site 227377002677 AMIN domain; Region: AMIN; pfam11741 227377002678 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 227377002679 active site 227377002680 metal binding site [ion binding]; metal-binding site 227377002681 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 227377002682 Helix-turn-helix domain; Region: HTH_38; pfam13936 227377002683 Integrase core domain; Region: rve; pfam00665 227377002684 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 227377002685 Uncharacterized conserved protein [Function unknown]; Region: COG0062 227377002686 putative carbohydrate kinase; Provisional; Region: PRK10565 227377002687 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 227377002688 putative substrate binding site [chemical binding]; other site 227377002689 putative ATP binding site [chemical binding]; other site 227377002690 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 227377002691 Transposase; Region: DEDD_Tnp_IS110; pfam01548 227377002692 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 227377002693 ribonuclease R; Region: RNase_R; TIGR02063 227377002694 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 227377002695 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 227377002696 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 227377002697 RNA binding site [nucleotide binding]; other site 227377002698 multidrug efflux protein; Reviewed; Region: PRK09579 227377002699 MMPL family; Region: MMPL; cl14618 227377002700 MMPL family; Region: MMPL; cl14618 227377002701 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 227377002702 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 227377002703 HlyD family secretion protein; Region: HlyD_3; pfam13437 227377002704 fumarate hydratase; Reviewed; Region: fumC; PRK00485 227377002705 Class II fumarases; Region: Fumarase_classII; cd01362 227377002706 active site 227377002707 tetramer interface [polypeptide binding]; other site 227377002708 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; pfam03306 227377002709 Coxiella burnetii protein of unknown function (DUF762); Region: DUF762; pfam05555 227377002710 signal peptidase I; Provisional; Region: PRK10861 227377002711 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 227377002712 Catalytic site [active] 227377002713 Uncharacterized protein family (UPF0146); Region: UPF0146; cl00552 227377002714 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 227377002715 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 227377002716 N-acetyl-D-glucosamine binding site [chemical binding]; other site 227377002717 catalytic residue [active] 227377002718 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 227377002719 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 227377002720 Helix-turn-helix domain; Region: HTH_38; pfam13936 227377002721 Integrase core domain; Region: rve; pfam00665 227377002722 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 227377002723 MltA specific insert domain; Region: MltA; smart00925 227377002724 3D domain; Region: 3D; pfam06725 227377002725 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 227377002726 GIY-YIG motif/motif A; other site 227377002727 putative active site [active] 227377002728 putative metal binding site [ion binding]; other site 227377002729 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; cl01178 227377002730 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 227377002731 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 227377002732 hexamer interface [polypeptide binding]; other site 227377002733 ligand binding site [chemical binding]; other site 227377002734 putative active site [active] 227377002735 NAD(P) binding site [chemical binding]; other site 227377002736 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 227377002737 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 227377002738 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 227377002739 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 227377002740 Ligand binding site [chemical binding]; other site 227377002741 Dienelactone hydrolase family; Region: DLH; pfam01738 227377002742 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 227377002743 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 227377002744 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 227377002745 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 227377002746 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; cl19102 227377002747 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 227377002748 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 227377002749 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 227377002750 HSP70 interaction site [polypeptide binding]; other site 227377002751 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 227377002752 substrate binding site [polypeptide binding]; other site 227377002753 dimer interface [polypeptide binding]; other site 227377002754 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 227377002755 HPP family; Region: HPP; pfam04982 227377002756 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 227377002757 trimerization site [polypeptide binding]; other site 227377002758 active site 227377002759 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; cl18945 227377002760 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 227377002761 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 227377002762 catalytic residue [active] 227377002763 OPT oligopeptide transporter protein; Region: OPT; cl14607 227377002764 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 227377002765 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 227377002766 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 227377002767 active site 227377002768 dimerization interface [polypeptide binding]; other site 227377002769 Sel1-like repeats; Region: SEL1; smart00671 227377002770 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 227377002771 Sel1-like repeats; Region: SEL1; smart00671 227377002772 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 227377002773 Sel1-like repeats; Region: SEL1; smart00671 227377002774 Sel1-like repeats; Region: SEL1; smart00671 227377002775 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 227377002776 Sel1-like repeats; Region: SEL1; smart00671 227377002777 Sel1-like repeats; Region: SEL1; smart00671 227377002778 Sel1-like repeats; Region: SEL1; smart00671 227377002779 Sel1-like repeats; Region: SEL1; smart00671 227377002780 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 227377002781 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 227377002782 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 227377002783 Protein export membrane protein; Region: SecD_SecF; pfam02355 227377002784 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 227377002785 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 227377002786 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 227377002787 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 227377002788 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 227377002789 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 227377002790 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 227377002791 Ligand Binding Site [chemical binding]; other site 227377002792 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 227377002793 Bifunctional transglycosylase second domain; Region: UB2H; pfam14814 227377002794 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 227377002795 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 227377002796 ATP binding site [chemical binding]; other site 227377002797 putative Mg++ binding site [ion binding]; other site 227377002798 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 227377002799 nucleotide binding region [chemical binding]; other site 227377002800 ATP-binding site [chemical binding]; other site 227377002801 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 227377002802 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 227377002803 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 227377002804 active site 227377002805 motif I; other site 227377002806 motif II; other site 227377002807 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 227377002808 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 227377002809 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 227377002810 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 227377002811 active site 227377002812 ribulose/triose binding site [chemical binding]; other site 227377002813 phosphate binding site [ion binding]; other site 227377002814 substrate (anthranilate) binding pocket [chemical binding]; other site 227377002815 product (indole) binding pocket [chemical binding]; other site 227377002816 bifunctional phosphoribosylanthranilate isomerase/tryptophan synthase subunit beta; Provisional; Region: PRK13803 227377002817 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 227377002818 active site 227377002819 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 227377002820 pyridoxal 5'-phosphate binding site [chemical binding]; other site 227377002821 catalytic residue [active] 227377002822 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 227377002823 substrate binding site [chemical binding]; other site 227377002824 active site 227377002825 catalytic residues [active] 227377002826 heterodimer interface [polypeptide binding]; other site 227377002827 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 227377002828 Ergosterol biosynthesis ERG4/ERG24 family; Region: ERG4_ERG24; pfam01222 227377002829 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 227377002830 binding surface 227377002831 Tetratricopeptide repeat; Region: TPR_12; pfam13424 227377002832 TPR motif; other site 227377002833 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 227377002834 Major Facilitator Superfamily; Region: MFS_1; pfam07690 227377002835 putative substrate translocation pore; other site 227377002836 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 227377002837 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 227377002838 putative dimer interface [polypeptide binding]; other site 227377002839 Domain of unknown function (DUF378); Region: DUF378; pfam04070 227377002840 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 227377002841 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 227377002842 DNA photolyase; Region: DNA_photolyase; pfam00875 227377002843 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 227377002844 Protein of unknown function (DUF1658); Region: DUF1658; pfam07871 227377002845 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 227377002846 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 227377002847 putative substrate translocation pore; other site 227377002848 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 227377002849 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 227377002850 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 227377002851 Ligand Binding Site [chemical binding]; other site 227377002852 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 227377002853 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 227377002854 catalytic residue [active] 227377002855 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 227377002856 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 227377002857 putative acyl-acceptor binding pocket; other site 227377002858 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 227377002859 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 227377002860 GIY-YIG motif/motif A; other site 227377002861 active site 227377002862 catalytic site [active] 227377002863 putative DNA binding site [nucleotide binding]; other site 227377002864 metal binding site [ion binding]; metal-binding site 227377002865 UvrB/uvrC motif; Region: UVR; pfam02151 227377002866 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 227377002867 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 227377002868 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 227377002869 Transposase; Region: DEDD_Tnp_IS110; pfam01548 227377002870 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 227377002871 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 227377002872 seryl-tRNA synthetase; Provisional; Region: PRK05431 227377002873 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 227377002874 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 227377002875 dimer interface [polypeptide binding]; other site 227377002876 active site 227377002877 motif 1; other site 227377002878 motif 2; other site 227377002879 motif 3; other site 227377002880 recombination factor protein RarA; Reviewed; Region: PRK13342 227377002881 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 227377002882 Walker A motif; other site 227377002883 ATP binding site [chemical binding]; other site 227377002884 Walker B motif; other site 227377002885 arginine finger; other site 227377002886 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 227377002887 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 227377002888 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 227377002889 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 227377002890 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 227377002891 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 227377002892 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 227377002893 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 227377002894 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 227377002895 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 227377002896 rRNA binding site [nucleotide binding]; other site 227377002897 predicted 30S ribosome binding site; other site 227377002898 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 227377002899 Clp amino terminal domain; Region: Clp_N; pfam02861 227377002900 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 227377002901 Walker A motif; other site 227377002902 ATP binding site [chemical binding]; other site 227377002903 Walker B motif; other site 227377002904 arginine finger; other site 227377002905 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 227377002906 Walker A motif; other site 227377002907 ATP binding site [chemical binding]; other site 227377002908 Walker B motif; other site 227377002909 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 227377002910 isocitrate dehydrogenase; Reviewed; Region: PRK07006 227377002911 Queuosine biosynthesis protein; Region: Queuosine_synth; pfam02547 227377002912 YwiC-like protein; Region: YwiC; pfam14256 227377002913 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 227377002914 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 227377002915 active site 227377002916 FMN binding site [chemical binding]; other site 227377002917 substrate binding site [chemical binding]; other site 227377002918 3Fe-4S cluster binding site [ion binding]; other site 227377002919 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 227377002920 NAD(P) binding site [chemical binding]; other site 227377002921 catalytic residues [active] 227377002922 Ergosterol biosynthesis ERG4/ERG24 family; Region: ERG4_ERG24; pfam01222 227377002923 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 227377002924 putative substrate translocation pore; other site 227377002925 Major Facilitator Superfamily; Region: MFS_1; pfam07690 227377002926 FOG: Ankyrin repeat [General function prediction only]; Region: Arp; COG0666 227377002927 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 227377002928 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 227377002929 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 227377002930 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 227377002931 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 227377002932 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 227377002933 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 227377002934 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 227377002935 Transposase; Region: DEDD_Tnp_IS110; pfam01548 227377002936 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 227377002937 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 227377002938 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 227377002939 ATP binding site [chemical binding]; other site 227377002940 active site 227377002941 substrate binding site [chemical binding]; other site 227377002942 NlpB/DapX lipoprotein; Region: Lipoprotein_18; cl19507 227377002943 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 227377002944 dimer interface [polypeptide binding]; other site 227377002945 active site 227377002946 catalytic residue [active] 227377002947 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 227377002948 substrate binding site [chemical binding]; other site 227377002949 ATP binding site [chemical binding]; other site 227377002950 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 227377002951 RmuC family; Region: RmuC; pfam02646 227377002952 haloalkane dehalogenase; Provisional; Region: PRK03592 227377002953 Putative lysophospholipase; Region: Hydrolase_4; cl19140 227377002954 NAD-specific glutamate dehydrogenase [Amino acid transport and metabolism]; Region: COG2902 227377002955 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 227377002956 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 227377002957 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 227377002958 active site 227377002959 phosphorylation site [posttranslational modification] 227377002960 intermolecular recognition site; other site 227377002961 dimerization interface [polypeptide binding]; other site 227377002962 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 227377002963 DNA binding site [nucleotide binding] 227377002964 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 227377002965 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 227377002966 dimer interface [polypeptide binding]; other site 227377002967 phosphorylation site [posttranslational modification] 227377002968 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 227377002969 ATP binding site [chemical binding]; other site 227377002970 Mg2+ binding site [ion binding]; other site 227377002971 G-X-G motif; other site 227377002972 probable DNA repair protein; Region: TIGR03623 227377002973 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; cl19402 227377002974 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 227377002975 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 227377002976 Part of AAA domain; Region: AAA_19; pfam13245 227377002977 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 227377002978 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 227377002979 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 227377002980 AAA domain; Region: AAA_14; pfam13173 227377002981 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 227377002982 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 227377002983 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 227377002984 catalytic site [active] 227377002985 putative active site [active] 227377002986 putative substrate binding site [chemical binding]; other site 227377002987 dimer interface [polypeptide binding]; other site 227377002988 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 227377002989 oligomeric interface; other site 227377002990 putative active site [active] 227377002991 homodimer interface [polypeptide binding]; other site 227377002992 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 227377002993 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 227377002994 UGMP family protein; Validated; Region: PRK09604 227377002995 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 227377002996 malate dehydrogenase; Provisional; Region: PRK05442 227377002997 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 227377002998 NAD(P) binding site [chemical binding]; other site 227377002999 dimer interface [polypeptide binding]; other site 227377003000 malate binding site [chemical binding]; other site 227377003001 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 227377003002 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 227377003003 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 227377003004 generic binding surface II; other site 227377003005 generic binding surface I; other site 227377003006 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 227377003007 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 227377003008 putative substrate translocation pore; other site 227377003009 GTP-binding protein Der; Reviewed; Region: PRK00093 227377003010 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 227377003011 G1 box; other site 227377003012 GTP/Mg2+ binding site [chemical binding]; other site 227377003013 Switch I region; other site 227377003014 G2 box; other site 227377003015 Switch II region; other site 227377003016 G3 box; other site 227377003017 G4 box; other site 227377003018 G5 box; other site 227377003019 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 227377003020 G1 box; other site 227377003021 GTP/Mg2+ binding site [chemical binding]; other site 227377003022 Switch I region; other site 227377003023 G2 box; other site 227377003024 G3 box; other site 227377003025 Switch II region; other site 227377003026 G4 box; other site 227377003027 G5 box; other site 227377003028 KH-domain-like of EngA bacterial GTPase enzymes, C-terminal; Region: KH_dom-like; pfam14714 227377003029 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 227377003030 Tetratricopeptide repeat; Region: TPR_21; pfam09976 227377003031 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 227377003032 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 227377003033 dimer interface [polypeptide binding]; other site 227377003034 motif 1; other site 227377003035 active site 227377003036 motif 2; other site 227377003037 motif 3; other site 227377003038 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 227377003039 anticodon binding site; other site 227377003040 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 227377003041 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 227377003042 non-specific DNA binding site [nucleotide binding]; other site 227377003043 salt bridge; other site 227377003044 sequence-specific DNA binding site [nucleotide binding]; other site 227377003045 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl18962 227377003046 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 227377003047 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 227377003048 FeS/SAM binding site; other site 227377003049 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 227377003050 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 227377003051 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 227377003052 substrate binding pocket [chemical binding]; other site 227377003053 chain length determination region; other site 227377003054 active site lid residues [active] 227377003055 substrate-Mg2+ binding site; other site 227377003056 catalytic residues [active] 227377003057 aspartate-rich region 1; other site 227377003058 aspartate-rich region 2; other site 227377003059 SnoaL-like domain; Region: SnoaL_2; pfam12680 227377003060 Nucleoside diphosphate kinase; Region: NDK; pfam00334 227377003061 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 227377003062 active site 227377003063 multimer interface [polypeptide binding]; other site 227377003064 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 227377003065 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 227377003066 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 227377003067 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 227377003068 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 227377003069 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 227377003070 Protein of unknown function (DUF493); Region: DUF493; pfam04359 227377003071 lipoate-protein ligase B; Provisional; Region: PRK14342 227377003072 lipoyl synthase; Provisional; Region: PRK05481 227377003073 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 227377003074 FeS/SAM binding site; other site 227377003075 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 227377003076 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 227377003077 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 227377003078 active site 227377003079 LssY C-terminus; Region: LssY_C; pfam14067 227377003080 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 227377003081 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 227377003082 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 227377003083 Transposase; Region: DEDD_Tnp_IS110; pfam01548 227377003084 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 227377003085 6-phosphofructokinase; Provisional; Region: PRK14072 227377003086 active site 227377003087 ADP/pyrophosphate binding site [chemical binding]; other site 227377003088 dimerization interface [polypeptide binding]; other site 227377003089 allosteric effector site; other site 227377003090 fructose-1,6-bisphosphate binding site; other site 227377003091 Chagasin family peptidase inhibitor I42; Region: Inhibitor_I42; pfam09394 227377003092 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 227377003093 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 227377003094 metal binding site [ion binding]; metal-binding site 227377003095 substrate binding pocket [chemical binding]; other site 227377003096 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 227377003097 classical (c) SDRs; Region: SDR_c; cd05233 227377003098 NAD(P) binding site [chemical binding]; other site 227377003099 active site 227377003100 Entner-Doudoroff aldolase; Region: eda; TIGR01182 227377003101 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 227377003102 active site 227377003103 intersubunit interface [polypeptide binding]; other site 227377003104 catalytic residue [active] 227377003105 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 227377003106 putative catalytic residue [active] 227377003107 Exopolysaccharide synthesis, ExoD; Region: ExoD; pfam06055 227377003108 Protein of unknown function (DUF1658); Region: DUF1658; pfam07871 227377003109 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 227377003110 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 227377003111 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 227377003112 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 227377003113 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 227377003114 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 227377003115 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; smart01096 227377003116 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 227377003117 ATP-grasp domain; Region: ATP-grasp_4; cl17255 227377003118 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 227377003119 IMP binding site; other site 227377003120 dimer interface [polypeptide binding]; other site 227377003121 interdomain contacts; other site 227377003122 partial ornithine binding site; other site 227377003123 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 227377003124 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 227377003125 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 227377003126 catalytic site [active] 227377003127 subunit interface [polypeptide binding]; other site 227377003128 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 227377003129 AAA domain; Region: AAA_14; pfam13173 227377003130 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 227377003131 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 227377003132 Major Facilitator Superfamily; Region: MFS_1; pfam07690 227377003133 putative substrate translocation pore; other site 227377003134 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 227377003135 AAA domain; Region: AAA_14; pfam13173 227377003136 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 227377003137 chaperone protein DnaJ; Provisional; Region: PRK10767 227377003138 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 227377003139 HSP70 interaction site [polypeptide binding]; other site 227377003140 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 227377003141 substrate binding site [polypeptide binding]; other site 227377003142 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 227377003143 Zn binding sites [ion binding]; other site 227377003144 dimer interface [polypeptide binding]; other site 227377003145 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 227377003146 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 227377003147 nucleotide binding site [chemical binding]; other site 227377003148 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 227377003149 carboxyltransferase (CT) interaction site; other site 227377003150 biotinylation site [posttranslational modification]; other site 227377003151 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 227377003152 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 227377003153 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 227377003154 dimer interface [polypeptide binding]; other site 227377003155 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 227377003156 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 227377003157 oligomeric interface; other site 227377003158 putative active site [active] 227377003159 homodimer interface [polypeptide binding]; other site 227377003160 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 227377003161 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK01231 227377003162 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 227377003163 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 227377003164 Walker A/P-loop; other site 227377003165 ATP binding site [chemical binding]; other site 227377003166 Q-loop/lid; other site 227377003167 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 227377003168 ABC transporter signature motif; other site 227377003169 Walker B; other site 227377003170 D-loop; other site 227377003171 H-loop/switch region; other site 227377003172 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 227377003173 metal binding site 2 [ion binding]; metal-binding site 227377003174 putative DNA binding helix; other site 227377003175 metal binding site 1 [ion binding]; metal-binding site 227377003176 dimer interface [polypeptide binding]; other site 227377003177 structural Zn2+ binding site [ion binding]; other site 227377003178 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 227377003179 RnfH family Ubiquitin; Region: Ub-RnfH; cl17382 227377003180 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 227377003181 putative coenzyme Q binding site [chemical binding]; other site 227377003182 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 227377003183 SmpB-tmRNA interface; other site 227377003184 bifunctional methionine sulfoxide reductase B/A protein; Provisional; Region: PRK05550 227377003185 SelR domain; Region: SelR; cl15841 227377003186 methionine sulfoxide reductase A; Provisional; Region: PRK14054 227377003187 Predicted HD phosphohydrolase [General function prediction only]; Region: COG4341; cl17564 227377003188 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 227377003189 Fibrinogen alpha/beta chain family; Region: Fib_alpha; pfam08702 227377003190 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 227377003191 Phage integrase, N-terminal; Region: Phage_int_SAM_2; pfam12834 227377003192 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 227377003193 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 227377003194 DNA binding residues [nucleotide binding] 227377003195 Alpha subunit of integration host factor (IHFA); Region: IHF_A; cd13835 227377003196 DNA binding site [nucleotide binding] 227377003197 dimer interface [polypeptide binding]; other site 227377003198 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 227377003199 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 227377003200 putative tRNA-binding site [nucleotide binding]; other site 227377003201 B3/4 domain; Region: B3_4; pfam03483 227377003202 tRNA synthetase B5 domain; Region: B5; smart00874 227377003203 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 227377003204 dimer interface [polypeptide binding]; other site 227377003205 motif 1; other site 227377003206 motif 3; other site 227377003207 motif 2; other site 227377003208 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 227377003209 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 227377003210 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 227377003211 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 227377003212 dimer interface [polypeptide binding]; other site 227377003213 motif 1; other site 227377003214 active site 227377003215 motif 2; other site 227377003216 motif 3; other site 227377003217 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 227377003218 23S rRNA binding site [nucleotide binding]; other site 227377003219 L21 binding site [polypeptide binding]; other site 227377003220 L13 binding site [polypeptide binding]; other site 227377003221 Protein of unknown function (DUF1658); Region: DUF1658; pfam07871 227377003222 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 227377003223 translation initiation factor IF-3; Region: infC; TIGR00168 227377003224 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 227377003225 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 227377003226 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 227377003227 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 227377003228 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 227377003229 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 227377003230 active site 227377003231 dimer interface [polypeptide binding]; other site 227377003232 motif 1; other site 227377003233 motif 2; other site 227377003234 motif 3; other site 227377003235 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 227377003236 anticodon binding site; other site 227377003237 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 227377003238 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 227377003239 FeS/SAM binding site; other site 227377003240 FOG: CBS domain [General function prediction only]; Region: COG0517 227377003241 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_9; cd04622 227377003242 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 227377003243 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 227377003244 Cyclin; Region: Cyclin; pfam08613 227377003245 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 227377003246 EamA-like transporter family; Region: EamA; pfam00892 227377003247 EamA-like transporter family; Region: EamA; pfam00892 227377003248 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 227377003249 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 227377003250 putative active site [active] 227377003251 putative PHP Thumb interface [polypeptide binding]; other site 227377003252 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 227377003253 Helix-hairpin-helix motif; Region: HHH_6; pfam14579 227377003254 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 227377003255 generic binding surface II; other site 227377003256 generic binding surface I; other site 227377003257 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 227377003258 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 227377003259 ATP-grasp domain; Region: ATP-grasp_4; cl17255 227377003260 Bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 227377003261 RNA/DNA hybrid binding site [nucleotide binding]; other site 227377003262 active site 227377003263 GMP synthase; Reviewed; Region: guaA; PRK00074 227377003264 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 227377003265 AMP/PPi binding site [chemical binding]; other site 227377003266 candidate oxyanion hole; other site 227377003267 catalytic triad [active] 227377003268 potential glutamine specificity residues [chemical binding]; other site 227377003269 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 227377003270 ATP Binding subdomain [chemical binding]; other site 227377003271 Ligand Binding sites [chemical binding]; other site 227377003272 Dimerization subdomain; other site 227377003273 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 227377003274 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 227377003275 active site 227377003276 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 227377003277 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 227377003278 Major Facilitator Superfamily; Region: MFS_1; pfam07690 227377003279 putative substrate translocation pore; other site 227377003280 Trehalase; Region: Trehalase; cl17346 227377003281 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 227377003282 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 227377003283 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 227377003284 active site 227377003285 substrate binding site [chemical binding]; other site 227377003286 metal binding site [ion binding]; metal-binding site 227377003287 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 227377003288 Dihydropteroate synthase and related enzymes [Coenzyme metabolism]; Region: FolP; COG0294 227377003289 substrate binding pocket [chemical binding]; other site 227377003290 dimer interface [polypeptide binding]; other site 227377003291 inhibitor binding site; inhibition site 227377003292 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 227377003293 FtsH Extracellular; Region: FtsH_ext; pfam06480 227377003294 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 227377003295 Walker A motif; other site 227377003296 ATP binding site [chemical binding]; other site 227377003297 Walker B motif; other site 227377003298 arginine finger; other site 227377003299 Peptidase family M41; Region: Peptidase_M41; pfam01434 227377003300 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 227377003301 S-adenosylmethionine binding site [chemical binding]; other site 227377003302 probable FeS assembly SUF system protein SufT; Region: FeS_long_SufT; TIGR03406 227377003303 FeS assembly scaffold SufA; Region: sufA_proteo; TIGR01997 227377003304 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 227377003305 trimerization site [polypeptide binding]; other site 227377003306 active site 227377003307 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 227377003308 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 227377003309 catalytic residue [active] 227377003310 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 227377003311 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 227377003312 sulfate ABC transporter protein; Validated; Region: ycf16; CHL00131 227377003313 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 227377003314 Walker A/P-loop; other site 227377003315 ATP binding site [chemical binding]; other site 227377003316 Q-loop/lid; other site 227377003317 ABC transporter signature motif; other site 227377003318 Walker B; other site 227377003319 D-loop; other site 227377003320 H-loop/switch region; other site 227377003321 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 227377003322 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 227377003323 FeS assembly SUF system regulator, gammaproteobacterial; Region: suf_reg_Xantho; TIGR02944 227377003324 Rrf2 family protein; Region: rrf2_super; TIGR00738 227377003325 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 227377003326 putative DNA binding site [nucleotide binding]; other site 227377003327 putative Zn2+ binding site [ion binding]; other site 227377003328 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 227377003329 exonuclease I; Provisional; Region: sbcB; PRK11779 227377003330 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 227377003331 active site 227377003332 catalytic site [active] 227377003333 substrate binding site [chemical binding]; other site 227377003334 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 227377003335 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 227377003336 Glycoprotease family; Region: Peptidase_M22; pfam00814 227377003337 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 227377003338 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 227377003339 chorismate binding enzyme; Region: Chorismate_bind; cl10555 227377003340 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 227377003341 nucleoside/Zn binding site; other site 227377003342 dimer interface [polypeptide binding]; other site 227377003343 catalytic motif [active] 227377003344 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 227377003345 HD domain; Region: HD_4; pfam13328 227377003346 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 227377003347 synthetase active site [active] 227377003348 NTP binding site [chemical binding]; other site 227377003349 metal binding site [ion binding]; metal-binding site 227377003350 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 227377003351 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 227377003352 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 227377003353 zinc metallopeptidase RseP; Provisional; Region: PRK10779 227377003354 active site 227377003355 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 227377003356 protein binding site [polypeptide binding]; other site 227377003357 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 227377003358 protein binding site [polypeptide binding]; other site 227377003359 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 227377003360 putative substrate binding region [chemical binding]; other site 227377003361 similar to hypothetical protein 227377003362 DoxX; Region: DoxX; pfam07681 227377003363 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 227377003364 Cis (Z)-Isoprenyl Diphosphate Synthases; Region: Cis_IPPS; cd00475 227377003365 active site 227377003366 dimer interface [polypeptide binding]; other site 227377003367 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 227377003368 hinge region; other site 227377003369 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 227377003370 putative nucleotide binding site [chemical binding]; other site 227377003371 uridine monophosphate binding site [chemical binding]; other site 227377003372 homohexameric interface [polypeptide binding]; other site 227377003373 elongation factor Ts; Provisional; Region: tsf; PRK09377 227377003374 UBA/TS-N domain; Region: UBA; pfam00627 227377003375 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 227377003376 rRNA interaction site [nucleotide binding]; other site 227377003377 S8 interaction site; other site 227377003378 putative laminin-1 binding site; other site 227377003379 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 227377003380 active site 227377003381 2-phosphosulpholactate phosphatase; Region: 2-ph_phosp; cl00895 227377003382 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 227377003383 GtrA-like protein; Region: GtrA; pfam04138 227377003384 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 227377003385 CoA binding domain; Region: CoA_binding; pfam02629 227377003386 CoA-ligase; Region: Ligase_CoA; pfam00549 227377003387 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 227377003388 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 227377003389 CoA-ligase; Region: Ligase_CoA; pfam00549 227377003390 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 227377003391 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 227377003392 E3 interaction surface; other site 227377003393 lipoyl attachment site [posttranslational modification]; other site 227377003394 e3 binding domain; Region: E3_binding; pfam02817 227377003395 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 227377003396 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 227377003397 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 227377003398 TPP-binding site [chemical binding]; other site 227377003399 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 227377003400 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 227377003401 dimer interface [polypeptide binding]; other site 227377003402 PYR/PP interface [polypeptide binding]; other site 227377003403 TPP binding site [chemical binding]; other site 227377003404 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 227377003405 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 227377003406 catalytic loop [active] 227377003407 iron binding site [ion binding]; other site 227377003408 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 227377003409 L-aspartate oxidase; Provisional; Region: PRK06175 227377003410 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 227377003411 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 227377003412 SdhC subunit interface [polypeptide binding]; other site 227377003413 proximal heme binding site [chemical binding]; other site 227377003414 cardiolipin binding site; other site 227377003415 Iron-sulfur protein interface; other site 227377003416 proximal quinone binding site [chemical binding]; other site 227377003417 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 227377003418 Iron-sulfur protein interface; other site 227377003419 proximal quinone binding site [chemical binding]; other site 227377003420 SdhD (CybS) interface [polypeptide binding]; other site 227377003421 proximal heme binding site [chemical binding]; other site 227377003422 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 227377003423 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 227377003424 dimer interface [polypeptide binding]; other site 227377003425 active site 227377003426 citrylCoA binding site [chemical binding]; other site 227377003427 NADH binding [chemical binding]; other site 227377003428 cationic pore residues; other site 227377003429 oxalacetate/citrate binding site [chemical binding]; other site 227377003430 coenzyme A binding site [chemical binding]; other site 227377003431 catalytic triad [active] 227377003432 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 227377003433 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 227377003434 thiamine monophosphate kinase; Provisional; Region: PRK05731 227377003435 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 227377003436 ATP binding site [chemical binding]; other site 227377003437 dimerization interface [polypeptide binding]; other site 227377003438 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 227377003439 non-specific DNA binding site [nucleotide binding]; other site 227377003440 salt bridge; other site 227377003441 sequence-specific DNA binding site [nucleotide binding]; other site 227377003442 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 227377003443 Catalytic site [active] 227377003444 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 227377003445 putative RNA binding site [nucleotide binding]; other site 227377003446 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 227377003447 ATP cone domain; Region: ATP-cone; pfam03477 227377003448 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 227377003449 dimer interface [polypeptide binding]; other site 227377003450 active site 227377003451 glycine-pyridoxal phosphate binding site [chemical binding]; other site 227377003452 folate binding site [chemical binding]; other site 227377003453 DNA repair protein RadA; Provisional; Region: PRK11823 227377003454 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 227377003455 Walker A motif/ATP binding site; other site 227377003456 ATP binding site [chemical binding]; other site 227377003457 Walker B motif; other site 227377003458 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 227377003459 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 227377003460 dimer interface [polypeptide binding]; other site 227377003461 active site 227377003462 Schiff base residues; other site 227377003463 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 227377003464 Protein of unknown function (DUF962); Region: DUF962; cl01879 227377003465 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 227377003466 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 227377003467 RNA binding site [nucleotide binding]; other site 227377003468 active site 227377003469 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 227377003470 ribosome-binding factor A; Provisional; Region: PRK13817 227377003471 translation initiation factor IF-2; Validated; Region: infB; PRK05306 227377003472 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 227377003473 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 227377003474 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 227377003475 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 227377003476 G1 box; other site 227377003477 putative GEF interaction site [polypeptide binding]; other site 227377003478 GTP/Mg2+ binding site [chemical binding]; other site 227377003479 Switch I region; other site 227377003480 G2 box; other site 227377003481 G3 box; other site 227377003482 Switch II region; other site 227377003483 G4 box; other site 227377003484 G5 box; other site 227377003485 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 227377003486 Translation-initiation factor 2; Region: IF-2; pfam11987 227377003487 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 227377003488 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 227377003489 NusA N-terminal domain; Region: NusA_N; pfam08529 227377003490 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 227377003491 RNA binding site [nucleotide binding]; other site 227377003492 homodimer interface [polypeptide binding]; other site 227377003493 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 227377003494 G-X-X-G motif; other site 227377003495 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 227377003496 G-X-X-G motif; other site 227377003497 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 227377003498 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 227377003499 Sm and related proteins; Region: Sm_like; cl00259 227377003500 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 227377003501 putative oligomer interface [polypeptide binding]; other site 227377003502 putative RNA binding site [nucleotide binding]; other site 227377003503 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 227377003504 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 227377003505 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 227377003506 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 227377003507 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 227377003508 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 227377003509 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 227377003510 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 227377003511 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 227377003512 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 227377003513 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 227377003514 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 227377003515 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 227377003516 NADH dehydrogenase subunit G; Validated; Region: PRK09129 227377003517 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 227377003518 catalytic loop [active] 227377003519 iron binding site [ion binding]; other site 227377003520 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 227377003521 MopB_NDH-1_NuoG2: The second domain of the NuoG subunit of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1), found in beta- and gammaproteobacteria. The NDH-1 is the first energy-transducting complex in the respiratory chain and functions as...; Region: MopB_NDH-1_NuoG2; cd02772 227377003522 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 227377003523 molybdopterin cofactor binding site; other site 227377003524 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 227377003525 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 227377003526 SLBB domain; Region: SLBB; pfam10531 227377003527 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 227377003528 Thioredoxin-like [2Fe-2S] ferredoxin; Region: 2Fe-2S_thioredx; pfam01257 227377003529 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 227377003530 putative dimer interface [polypeptide binding]; other site 227377003531 [2Fe-2S] cluster binding site [ion binding]; other site 227377003532 NADH dehydrogenase subunit D; Validated; Region: PRK06075 227377003533 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 227377003534 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 227377003535 NADH dehydrogenase subunit B; Validated; Region: PRK06411 227377003536 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 227377003537 Preprotein translocase SecG subunit; Region: SecG; pfam03840 227377003538 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 227377003539 substrate binding site [chemical binding]; other site 227377003540 dimer interface [polypeptide binding]; other site 227377003541 catalytic triad [active] 227377003542 periplasmic folding chaperone; Provisional; Region: PRK10788 227377003543 SurA N-terminal domain; Region: SurA_N_3; cl07813 227377003544 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 227377003545 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 227377003546 Sel1-like repeats; Region: SEL1; smart00671 227377003547 Sel1-like repeats; Region: SEL1; smart00671 227377003548 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 227377003549 AAA domain; Region: AAA_14; pfam13173 227377003550 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 227377003551 histone-like DNA-binding protein HU; Region: HU; cd13831 227377003552 dimer interface [polypeptide binding]; other site 227377003553 DNA binding site [nucleotide binding] 227377003554 EVE domain; Region: EVE; cl00728 227377003555 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 227377003556 Putative modulator of DNA gyrase; Region: PmbA_TldD; cl19356 227377003557 TIGR02099 family protein; Region: TIGR02099 227377003558 Protein of unknown function; Region: DUF3971; pfam13116 227377003559 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 227377003560 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 227377003561 rod shape-determining protein MreC; Provisional; Region: PRK13922 227377003562 rod shape-determining protein MreB; Provisional; Region: PRK13927 227377003563 MreB and similar proteins; Region: MreB_like; cd10225 227377003564 nucleotide binding site [chemical binding]; other site 227377003565 Mg binding site [ion binding]; other site 227377003566 putative protofilament interaction site [polypeptide binding]; other site 227377003567 RodZ interaction site [polypeptide binding]; other site 227377003568 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 227377003569 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 227377003570 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 227377003571 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 227377003572 GatB domain; Region: GatB_Yqey; smart00845 227377003573 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 227377003574 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 227377003575 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 227377003576 dimerization interface [polypeptide binding]; other site 227377003577 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 227377003578 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 227377003579 dimer interface [polypeptide binding]; other site 227377003580 decamer (pentamer of dimers) interface [polypeptide binding]; other site 227377003581 catalytic triad [active] 227377003582 peroxidatic and resolving cysteines [active] 227377003583 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 227377003584 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 227377003585 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 227377003586 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 227377003587 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 227377003588 prohibitin homologues; Region: PHB; smart00244 227377003589 Uncharacterized prokaryotic subgroup of the stomatin-like proteins (slipins) family; belonging to the SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; Region: SPFH_eoslipins_u1; cd08826 227377003590 trimer interface [polypeptide binding]; other site 227377003591 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 227377003592 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 227377003593 dimer interface [polypeptide binding]; other site 227377003594 active site residues [active] 227377003595 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 227377003596 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 227377003597 D-galactonate transporter; Region: 2A0114; TIGR00893 227377003598 putative substrate translocation pore; other site 227377003599 Cyclin box fold. Protein binding domain functioning in cell-cycle and transcription control. Present in cyclins, TFIIB and Retinoblastoma (RB).The cyclins consist of 8 classes of cell cycle regulators that regulate cyclin dependent kinases (CDKs). TFIIB...; Region: CYCLIN; cl00050 227377003600 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 227377003601 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 227377003602 active site 227377003603 HIGH motif; other site 227377003604 KMSKS motif; other site 227377003605 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 227377003606 tRNA binding surface [nucleotide binding]; other site 227377003607 anticodon binding site; other site 227377003608 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 227377003609 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 227377003610 active site 227377003611 HIGH motif; other site 227377003612 KMSKS motif; other site 227377003613 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 227377003614 putative active site [active] 227377003615 putative metal binding site [ion binding]; other site 227377003616 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 227377003617 sequence-specific DNA binding site [nucleotide binding]; other site 227377003618 salt bridge; other site 227377003619 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 227377003620 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 227377003621 Transposase [DNA replication, recombination, and repair]; Region: COG5433 227377003622 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 227377003623 active site 227377003624 hydrophilic channel; other site 227377003625 dimerization interface [polypeptide binding]; other site 227377003626 catalytic residues [active] 227377003627 active site lid [active] 227377003628 Recombination protein O N terminal; Region: RecO_N; pfam11967 227377003629 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 227377003630 Recombination protein O C terminal; Region: RecO_C; pfam02565 227377003631 GTPase Era; Reviewed; Region: era; PRK00089 227377003632 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 227377003633 G1 box; other site 227377003634 GTP/Mg2+ binding site [chemical binding]; other site 227377003635 Switch I region; other site 227377003636 G2 box; other site 227377003637 Switch II region; other site 227377003638 G3 box; other site 227377003639 G4 box; other site 227377003640 G5 box; other site 227377003641 KH domain; Region: KH_2; pfam07650 227377003642 ribonuclease III; Reviewed; Region: rnc; PRK00102 227377003643 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 227377003644 dimerization interface [polypeptide binding]; other site 227377003645 active site 227377003646 metal binding site [ion binding]; metal-binding site 227377003647 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 227377003648 dsRNA binding site [nucleotide binding]; other site 227377003649 signal peptidase I; Provisional; Region: PRK10861 227377003650 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 227377003651 Catalytic site [active] 227377003652 GTP-binding protein LepA; Provisional; Region: PRK05433 227377003653 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 227377003654 G1 box; other site 227377003655 putative GEF interaction site [polypeptide binding]; other site 227377003656 GTP/Mg2+ binding site [chemical binding]; other site 227377003657 Switch I region; other site 227377003658 G2 box; other site 227377003659 G3 box; other site 227377003660 Switch II region; other site 227377003661 G4 box; other site 227377003662 G5 box; other site 227377003663 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 227377003664 Elongation Factor G, domain II; Region: EFG_II; pfam14492 227377003665 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 227377003666 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 227377003667 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 227377003668 active site 227377003669 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 227377003670 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 227377003671 metal-binding site [ion binding] 227377003672 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 227377003673 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 227377003674 motif II; other site 227377003675 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 227377003676 AAA domain; Region: AAA_14; pfam13173 227377003677 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 227377003678 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 227377003679 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 227377003680 Ligand Binding Site [chemical binding]; other site 227377003681 TilS substrate binding domain; Region: TilS; pfam09179 227377003682 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 227377003683 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 227377003684 ZIP Zinc transporter; Region: Zip; cl00437 227377003685 rhodanese superfamily protein; Provisional; Region: PRK05320 227377003686 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 227377003687 active site residue [active] 227377003688 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 227377003689 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 227377003690 NAD(P) binding site [chemical binding]; other site 227377003691 active site 227377003692 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 227377003693 classical (c) SDRs; Region: SDR_c; cd05233 227377003694 NAD(P) binding site [chemical binding]; other site 227377003695 active site 227377003696 Transposase [DNA replication, recombination, and repair]; Region: COG5421 227377003697 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 227377003698 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 227377003699 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 227377003700 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 227377003701 preprotein translocase subunit SecB; Validated; Region: PRK05751 227377003702 SecA binding site; other site 227377003703 Preprotein binding site; other site 227377003704 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 227377003705 GSH binding site [chemical binding]; other site 227377003706 catalytic residues [active] 227377003707 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 227377003708 active site residue [active] 227377003709 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 227377003710 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 227377003711 phosphoglyceromutase; Provisional; Region: PRK05434 227377003712 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 227377003713 Protein of unknown function (DUF342); Region: DUF342; cl19219 227377003714 Peptidase family M23; Region: Peptidase_M23; pfam01551 227377003715 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 227377003716 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 227377003717 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 227377003718 protein binding site [polypeptide binding]; other site 227377003719 Catalytic dyad [active] 227377003720 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 227377003721 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 227377003722 Insulin-induced protein (INSIG); Region: INSIG; pfam07281 227377003723 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 227377003724 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 227377003725 Helix-turn-helix domain; Region: HTH_38; pfam13936 227377003726 Integrase core domain; Region: rve; pfam00665 227377003727 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 227377003728 dimerization interface [polypeptide binding]; other site 227377003729 active site 227377003730 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 227377003731 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 227377003732 GAF domain; Region: GAF; pfam01590 227377003733 PEP-utilizing enzyme, N-terminal; Region: PEP-utilizers_N; pfam05524 227377003734 PEP-utilizing enzyme, mobile domain; Region: PEP-utilizers; pfam00391 227377003735 PEP-utilizing enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 227377003736 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 227377003737 putative active site [active] 227377003738 Ap4A binding site [chemical binding]; other site 227377003739 nudix motif; other site 227377003740 putative metal binding site [ion binding]; other site 227377003741 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 227377003742 ATP cone domain; Region: ATP-cone; pfam03477 227377003743 Class I ribonucleotide reductase; Region: RNR_I; cd01679 227377003744 active site 227377003745 dimer interface [polypeptide binding]; other site 227377003746 catalytic residues [active] 227377003747 effector binding site; other site 227377003748 R2 peptide binding site; other site 227377003749 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 227377003750 dimer interface [polypeptide binding]; other site 227377003751 putative radical transfer pathway; other site 227377003752 diiron center [ion binding]; other site 227377003753 tyrosyl radical; other site 227377003754 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 227377003755 Transposase [DNA replication, recombination, and repair]; Region: COG5433 227377003756 Zinc ribbon domain; Region: Zn-ribbon_8; cl00993 227377003757 Uncharacterized conserved protein [Function unknown]; Region: COG2928 227377003758 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 227377003759 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 227377003760 dimer interface [polypeptide binding]; other site 227377003761 anticodon binding site; other site 227377003762 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 227377003763 homodimer interface [polypeptide binding]; other site 227377003764 motif 1; other site 227377003765 active site 227377003766 motif 2; other site 227377003767 GAD domain; Region: GAD; pfam02938 227377003768 motif 3; other site 227377003769 hypothetical protein; Validated; Region: PRK00110 227377003770 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 227377003771 active site 227377003772 putative DNA-binding cleft [nucleotide binding]; other site 227377003773 dimer interface [polypeptide binding]; other site 227377003774 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 227377003775 RuvA N terminal domain; Region: RuvA_N; pfam01330 227377003776 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 227377003777 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 227377003778 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 227377003779 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; cl18944 227377003780 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 227377003781 Walker A motif; other site 227377003782 ATP binding site [chemical binding]; other site 227377003783 Walker B motif; other site 227377003784 arginine finger; other site 227377003785 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 227377003786 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 227377003787 Transposase; Region: DEDD_Tnp_IS110; pfam01548 227377003788 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 227377003789 putative MFS family transporter protein; Provisional; Region: PRK03633 227377003790 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 227377003791 putative substrate translocation pore; other site 227377003792 TolQ protein; Region: tolQ; TIGR02796 227377003793 TolR protein; Region: tolR; TIGR02801 227377003794 Daxx Family; Region: Daxx; pfam03344 227377003795 L,D-transpeptidase; Provisional; Region: PRK10260 227377003796 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 227377003797 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 227377003798 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 227377003799 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 227377003800 Predicted ATPase [General function prediction only]; Region: COG1485 227377003801 Walker A motif; other site 227377003802 ATP binding site [chemical binding]; other site 227377003803 Walker B motif; other site 227377003804 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 227377003805 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 227377003806 Na+/H+ ion antiporter subunit; Region: MNHE; pfam01899 227377003807 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12663 227377003808 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 227377003809 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 227377003810 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12509 227377003811 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12647 227377003812 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 227377003813 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 227377003814 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 227377003815 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 227377003816 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 227377003817 Transposase; Region: DEDD_Tnp_IS110; pfam01548 227377003818 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 227377003819 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 227377003820 Yqey-like protein; Region: YqeY; pfam09424 227377003821 DNA primase; Validated; Region: dnaG; PRK05667 227377003822 CHC2 zinc finger; Region: zf-CHC2; pfam01807 227377003823 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 227377003824 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 227377003825 active site 227377003826 metal binding site [ion binding]; metal-binding site 227377003827 interdomain interaction site; other site 227377003828 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 227377003829 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; smart00766 227377003830 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 227377003831 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 227377003832 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 227377003833 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 227377003834 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 227377003835 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 227377003836 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 227377003837 DNA binding residues [nucleotide binding] 227377003838 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 227377003839 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 227377003840 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 227377003841 ATP-grasp domain; Region: ATP-grasp_4; cl17255 227377003842 Predicted deacylase [General function prediction only]; Region: COG3608 227377003843 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 227377003844 putative active site [active] 227377003845 Zn binding site [ion binding]; other site 227377003846 AAA-like domain; Region: AAA_10; pfam12846 227377003847 HNH nucleases; Region: HNHc; smart00507 227377003848 Uncharacterized protein conserved in bacteria with the myosin-like domain [Function unknown]; Region: COG4372 227377003849 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 227377003850 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 227377003851 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 227377003852 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 227377003853 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 227377003854 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 227377003855 Protein of unknown function (DUF3625); Region: DUF3625; pfam12293 227377003856 Macrophage killing protein with similarity to conjugation protein; Region: IcmL; pfam11393 227377003857 Macrophage killing protein with similarity to conjugation protein; Region: IcmL; pfam11393 227377003858 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 227377003859 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 227377003860 ligand binding site [chemical binding]; other site 227377003861 Domain of unknown function DUF87; Region: DUF87; cl19135 227377003862 AAA-like domain; Region: AAA_10; pfam12846 227377003863 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 227377003864 Dot/Icm secretion system protein IcmQ; Region: dot_icm_IcmQ; TIGR02527 227377003865 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 227377003866 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 227377003867 Walker A motif; other site 227377003868 ATP binding site [chemical binding]; other site 227377003869 Walker B motif; other site 227377003870 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 227377003871 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 227377003872 Transposase; Region: DEDD_Tnp_IS110; pfam01548 227377003873 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 227377003874 Protein of unknown function (DUF3773); Region: DUF3773; pfam12608 227377003875 Dot/Icm secretion system ATPase DotB; Region: dot_icm_DotB; TIGR02524 227377003876 Walker A motif; other site 227377003877 ATP binding site [chemical binding]; other site 227377003878 Walker B motif; other site 227377003879 BCCT family transporter; Region: BCCT; cl00569 227377003880 conjugal transfer/type IV secretion protein DotA/TraY; Region: DotA_TraY; TIGR04346 227377003881 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 227377003882 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 227377003883 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 227377003884 putative ribose interaction site [chemical binding]; other site 227377003885 putative ADP binding site [chemical binding]; other site 227377003886 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 227377003887 active site 227377003888 nucleotide binding site [chemical binding]; other site 227377003889 HIGH motif; other site 227377003890 KMSKS motif; other site 227377003891 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 227377003892 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 227377003893 putative metal binding site; other site 227377003894 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 227377003895 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 227377003896 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 227377003897 O-Antigen ligase; Region: Wzy_C; pfam04932 227377003898 Uncharacterized conserved protein [Function unknown]; Region: COG5495 227377003899 Rossmann-like domain; Region: Rossmann-like; pfam10727 227377003900 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 227377003901 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 227377003902 putative active site [active] 227377003903 Zinc-finger domain; Region: zf-CHCC; cl01821 227377003904 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_27; cd04640 227377003905 FOG: CBS domain [General function prediction only]; Region: COG0517 227377003906 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 227377003907 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 227377003908 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 227377003909 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 227377003910 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 227377003911 DNA binding residues [nucleotide binding] 227377003912 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 227377003913 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 227377003914 Peptidase family M23; Region: Peptidase_M23; pfam01551 227377003915 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 227377003916 Septum formation initiator; Region: DivIC; cl17659 227377003917 enolase; Provisional; Region: eno; PRK00077 227377003918 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 227377003919 dimer interface [polypeptide binding]; other site 227377003920 metal binding site [ion binding]; metal-binding site 227377003921 substrate binding pocket [chemical binding]; other site 227377003922 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 227377003923 Protein of unknown function (DUF1658); Region: DUF1658; pfam07871 227377003924 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 227377003925 Fe binding site [ion binding]; other site 227377003926 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 227377003927 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 227377003928 CTP synthetase; Validated; Region: pyrG; PRK05380 227377003929 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 227377003930 Catalytic site [active] 227377003931 active site 227377003932 UTP binding site [chemical binding]; other site 227377003933 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 227377003934 active site 227377003935 putative oxyanion hole; other site 227377003936 catalytic triad [active] 227377003937 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 227377003938 trimer interface [polypeptide binding]; other site 227377003939 active site 227377003940 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 227377003941 MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions...; Region: MRP-like; cd02037 227377003942 Walker A motif; other site 227377003943 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 227377003944 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 227377003945 non-specific DNA binding site [nucleotide binding]; other site 227377003946 salt bridge; other site 227377003947 sequence-specific DNA binding site [nucleotide binding]; other site 227377003948 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 227377003949 methionyl-tRNA synthetase; Reviewed; Region: PRK12268 227377003950 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 227377003951 active site 227377003952 HIGH motif; other site 227377003953 KMSKS motif; other site 227377003954 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 227377003955 tRNA binding surface [nucleotide binding]; other site 227377003956 anticodon binding site; other site 227377003957 ferredoxin; Provisional; Region: PRK08764 227377003958 Putative Fe-S cluster; Region: FeS; pfam04060 227377003959 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; cl19102 227377003960 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 227377003961 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 227377003962 minor groove reading motif; other site 227377003963 helix-hairpin-helix signature motif; other site 227377003964 substrate binding pocket [chemical binding]; other site 227377003965 active site 227377003966 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 227377003967 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 227377003968 AAA domain; Region: AAA_14; pfam13173 227377003969 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 227377003970 Bacterial protein of unknown function (DUF948); Region: DUF948; cl01972 227377003971 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 227377003972 Transposase; Region: DEDD_Tnp_IS110; pfam01548 227377003973 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 227377003974 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 227377003975 active site 227377003976 substrate binding pocket [chemical binding]; other site 227377003977 dimer interface [polypeptide binding]; other site 227377003978 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 227377003979 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 227377003980 dimer interface [polypeptide binding]; other site 227377003981 catalytic site [active] 227377003982 putative active site [active] 227377003983 putative substrate binding site [chemical binding]; other site 227377003984 peroxidase; Provisional; Region: PRK15000 227377003985 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 227377003986 dimer interface [polypeptide binding]; other site 227377003987 decamer (pentamer of dimers) interface [polypeptide binding]; other site 227377003988 catalytic triad [active] 227377003989 peroxidatic and resolving cysteines [active] 227377003990 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 227377003991 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 227377003992 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 227377003993 dihydrodipicolinate reductase; Provisional; Region: PRK00048 227377003994 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 227377003995 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 227377003996 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 227377003997 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 227377003998 GIY-YIG motif/motif A; other site 227377003999 putative active site [active] 227377004000 putative metal binding site [ion binding]; other site 227377004001 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 227377004002 tetramer interface [polypeptide binding]; other site 227377004003 pyridoxal 5'-phosphate binding site [chemical binding]; other site 227377004004 catalytic residue [active] 227377004005 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 227377004006 tetramer interface [polypeptide binding]; other site 227377004007 pyridoxal 5'-phosphate binding site [chemical binding]; other site 227377004008 catalytic residue [active] 227377004009 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 227377004010 lipoyl attachment site [posttranslational modification]; other site 227377004011 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 227377004012 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 227377004013 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 227377004014 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 227377004015 Transposase; Region: DEDD_Tnp_IS110; pfam01548 227377004016 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 227377004017 chaperonin GroEL; Reviewed; Region: groEL; PRK12850 227377004018 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 227377004019 ring oligomerisation interface [polypeptide binding]; other site 227377004020 ATP/Mg binding site [chemical binding]; other site 227377004021 stacking interactions; other site 227377004022 hinge regions; other site 227377004023 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 227377004024 oligomerisation interface [polypeptide binding]; other site 227377004025 mobile loop; other site 227377004026 roof hairpin; other site 227377004027 aconitate hydratase; Validated; Region: PRK09277 227377004028 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 227377004029 substrate binding site [chemical binding]; other site 227377004030 ligand binding site [chemical binding]; other site 227377004031 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 227377004032 substrate binding site [chemical binding]; other site 227377004033 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 227377004034 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 227377004035 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 227377004036 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 227377004037 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 227377004038 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 227377004039 DsbD alpha interface [polypeptide binding]; other site 227377004040 catalytic residues [active] 227377004041 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 227377004042 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 227377004043 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 227377004044 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 227377004045 carboxyltransferase (CT) interaction site; other site 227377004046 biotinylation site [posttranslational modification]; other site 227377004047 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 227377004048 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 227377004049 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 227377004050 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 227377004051 ornithine cyclodeaminase; Validated; Region: PRK07589 227377004052 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 227377004053 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 227377004054 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 227377004055 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 227377004056 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 227377004057 active site 227377004058 motif I; other site 227377004059 motif II; other site 227377004060 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 227377004061 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_3; cd12174 227377004062 putative ligand binding site [chemical binding]; other site 227377004063 putative NAD binding site [chemical binding]; other site 227377004064 putative catalytic site [active] 227377004065 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 227377004066 L-serine binding site [chemical binding]; other site 227377004067 ACT domain interface; other site 227377004068 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 227377004069 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 227377004070 Walker A motif; other site 227377004071 ATP binding site [chemical binding]; other site 227377004072 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; cl18944 227377004073 Walker B motif; other site 227377004074 arginine finger; other site 227377004075 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 227377004076 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 227377004077 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 227377004078 dimerization interface [polypeptide binding]; other site 227377004079 putative ATP binding site [chemical binding]; other site 227377004080 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 227377004081 active site 227377004082 substrate binding site [chemical binding]; other site 227377004083 cosubstrate binding site; other site 227377004084 catalytic site [active] 227377004085 Beta subunit of integration host factor (IHFB); Region: IHF_B; cd13836 227377004086 dimer interface [polypeptide binding]; other site 227377004087 DNA binding site [nucleotide binding] 227377004088 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 227377004089 putative SAM binding site [chemical binding]; other site 227377004090 putative homodimer interface [polypeptide binding]; other site 227377004091 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 227377004092 putative ligand binding site [chemical binding]; other site 227377004093 hypothetical protein; Provisional; Region: PRK14684 227377004094 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 227377004095 dimer interface [polypeptide binding]; other site 227377004096 active site 227377004097 BON domain; Region: BON; pfam04972 227377004098 BON domain; Region: BON; pfam04972 227377004099 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 227377004100 Peptidase family M50; Region: Peptidase_M50; pfam02163 227377004101 active site 227377004102 putative substrate binding region [chemical binding]; other site 227377004103 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 227377004104 stringent starvation protein A; Provisional; Region: sspA; PRK09481 227377004105 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 227377004106 C-terminal domain interface [polypeptide binding]; other site 227377004107 putative GSH binding site (G-site) [chemical binding]; other site 227377004108 dimer interface [polypeptide binding]; other site 227377004109 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 227377004110 N-terminal domain interface [polypeptide binding]; other site 227377004111 dimer interface [polypeptide binding]; other site 227377004112 substrate binding pocket (H-site) [chemical binding]; other site 227377004113 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 227377004114 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 227377004115 23S rRNA interface [nucleotide binding]; other site 227377004116 L3 interface [polypeptide binding]; other site 227377004117 DNA-binding proteins similar to HU domains; Region: HU_like; cd13834 227377004118 putative DNA binding site [nucleotide binding]; other site 227377004119 putative dimer interface [polypeptide binding]; other site 227377004120 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 227377004121 Domain of unknown function (DUF4351); Region: DUF4351; pfam14261 227377004122 multidrug resistance protein D; Provisional; Region: emrD; PRK11652 227377004123 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 227377004124 putative substrate translocation pore; other site 227377004125 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 227377004126 Transposase; Region: DEDD_Tnp_IS110; pfam01548 227377004127 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 227377004128 Protein of unknown function (DUF1658); Region: DUF1658; pfam07871 227377004129 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 227377004130 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 227377004131 putative active site [active] 227377004132 heme pocket [chemical binding]; other site 227377004133 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 227377004134 dimer interface [polypeptide binding]; other site 227377004135 phosphorylation site [posttranslational modification] 227377004136 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 227377004137 ATP binding site [chemical binding]; other site 227377004138 Mg2+ binding site [ion binding]; other site 227377004139 G-X-G motif; other site 227377004140 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 227377004141 active site 227377004142 phosphorylation site [posttranslational modification] 227377004143 intermolecular recognition site; other site 227377004144 dimerization interface [polypeptide binding]; other site 227377004145 Hpt domain; Region: Hpt; pfam01627 227377004146 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 227377004147 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 227377004148 AAA domain; Region: AAA_14; pfam13173 227377004149 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 227377004150 FeoC like transcriptional regulator; Region: FeoC; pfam09012 227377004151 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 227377004152 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 227377004153 G1 box; other site 227377004154 GTP/Mg2+ binding site [chemical binding]; other site 227377004155 Switch I region; other site 227377004156 G2 box; other site 227377004157 G3 box; other site 227377004158 Switch II region; other site 227377004159 G4 box; other site 227377004160 G5 box; other site 227377004161 Nucleoside recognition; Region: Gate; pfam07670 227377004162 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 227377004163 Nucleoside recognition; Region: Gate; pfam07670 227377004164 FeoA domain; Region: FeoA; pfam04023 227377004165 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 227377004166 Putative lysophospholipase; Region: Hydrolase_4; cl19140 227377004167 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 227377004168 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 227377004169 Walker A/P-loop; other site 227377004170 ATP binding site [chemical binding]; other site 227377004171 Q-loop/lid; other site 227377004172 ABC transporter signature motif; other site 227377004173 Walker B; other site 227377004174 D-loop; other site 227377004175 H-loop/switch region; other site 227377004176 C-terminal AAA-associated domain; Region: AAA_assoc_C; pfam09821 227377004177 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 227377004178 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 227377004179 dimer interface [polypeptide binding]; other site 227377004180 conserved gate region; other site 227377004181 putative PBP binding loops; other site 227377004182 ABC-ATPase subunit interface; other site 227377004183 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 227377004184 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 227377004185 dimer interface [polypeptide binding]; other site 227377004186 conserved gate region; other site 227377004187 putative PBP binding loops; other site 227377004188 ABC-ATPase subunit interface; other site 227377004189 Predicted GTPase [General function prediction only]; Region: COG0218 227377004190 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 227377004191 G1 box; other site 227377004192 GTP/Mg2+ binding site [chemical binding]; other site 227377004193 Switch I region; other site 227377004194 G2 box; other site 227377004195 G3 box; other site 227377004196 Switch II region; other site 227377004197 G4 box; other site 227377004198 G5 box; other site 227377004199 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 227377004200 intersubunit interface [polypeptide binding]; other site 227377004201 active site 227377004202 zinc binding site [ion binding]; other site 227377004203 Na+ binding site [ion binding]; other site 227377004204 pyruvate kinase; Provisional; Region: PRK05826 227377004205 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; cd00288 227377004206 domain interfaces; other site 227377004207 active site 227377004208 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 227377004209 substrate binding site [chemical binding]; other site 227377004210 hinge regions; other site 227377004211 ADP binding site [chemical binding]; other site 227377004212 catalytic site [active] 227377004213 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 227377004214 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 227377004215 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 227377004216 transketolase; Reviewed; Region: PRK12753 227377004217 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 227377004218 TPP-binding site [chemical binding]; other site 227377004219 dimer interface [polypeptide binding]; other site 227377004220 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 227377004221 PYR/PP interface [polypeptide binding]; other site 227377004222 dimer interface [polypeptide binding]; other site 227377004223 TPP binding site [chemical binding]; other site 227377004224 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 227377004225 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 227377004226 Transposase; Region: DEDD_Tnp_IS110; pfam01548 227377004227 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 227377004228 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 227377004229 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 227377004230 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 227377004231 Walker A motif; other site 227377004232 ATP binding site [chemical binding]; other site 227377004233 Walker B motif; other site 227377004234 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 227377004235 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 227377004236 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 227377004237 glutaminase active site [active] 227377004238 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 227377004239 dimer interface [polypeptide binding]; other site 227377004240 active site 227377004241 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 227377004242 dimer interface [polypeptide binding]; other site 227377004243 active site 227377004244 ORF6N domain; Region: ORF6N; pfam10543 227377004245 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 227377004246 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 227377004247 DNA polymerase I; Provisional; Region: PRK05755 227377004248 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 227377004249 active site 227377004250 metal binding site 1 [ion binding]; metal-binding site 227377004251 putative 5' ssDNA interaction site; other site 227377004252 metal binding site 3; metal-binding site 227377004253 metal binding site 2 [ion binding]; metal-binding site 227377004254 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 227377004255 putative DNA binding site [nucleotide binding]; other site 227377004256 putative metal binding site [ion binding]; other site 227377004257 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 227377004258 active site 227377004259 catalytic site [active] 227377004260 substrate binding site [chemical binding]; other site 227377004261 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 227377004262 active site 227377004263 DNA binding site [nucleotide binding] 227377004264 catalytic site [active] 227377004265 amino acid transporter; Region: 2A0306; TIGR00909 227377004266 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 227377004267 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 227377004268 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 227377004269 K+ potassium transporter; Region: K_trans; cl15781 227377004270 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 227377004271 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 227377004272 Coenzyme A binding pocket [chemical binding]; other site 227377004273 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 227377004274 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; cl18945 227377004275 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 227377004276 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 227377004277 DNA binding residues [nucleotide binding] 227377004278 dimerization interface [polypeptide binding]; other site 227377004279 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 227377004280 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 227377004281 DNA binding residues [nucleotide binding] 227377004282 dimerization interface [polypeptide binding]; other site 227377004283 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 227377004284 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 227377004285 FtsX-like permease family; Region: FtsX; pfam02687 227377004286 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 227377004287 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 227377004288 Walker A/P-loop; other site 227377004289 ATP binding site [chemical binding]; other site 227377004290 Q-loop/lid; other site 227377004291 ABC transporter signature motif; other site 227377004292 Walker B; other site 227377004293 D-loop; other site 227377004294 H-loop/switch region; other site 227377004295 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 227377004296 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 227377004297 HlyD family secretion protein; Region: HlyD_3; pfam13437 227377004298 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 227377004299 Outer membrane efflux protein; Region: OEP; pfam02321 227377004300 Outer membrane efflux protein; Region: OEP; pfam02321 227377004301 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 227377004302 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 227377004303 ligand binding site [chemical binding]; other site 227377004304 NAD binding site [chemical binding]; other site 227377004305 catalytic site [active] 227377004306 homodimer interface [polypeptide binding]; other site 227377004307 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 227377004308 primosome assembly protein PriA; Validated; Region: PRK05580 227377004309 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 227377004310 ATP binding site [chemical binding]; other site 227377004311 putative Mg++ binding site [ion binding]; other site 227377004312 NOA36 protein; Region: NOA36; pfam06524 227377004313 helicase superfamily c-terminal domain; Region: HELICc; smart00490 227377004314 elongation factor P; Validated; Region: PRK00529 227377004315 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 227377004316 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 227377004317 RNA binding site [nucleotide binding]; other site 227377004318 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 227377004319 RNA binding site [nucleotide binding]; other site 227377004320 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 227377004321 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 227377004322 motif 1; other site 227377004323 dimer interface [polypeptide binding]; other site 227377004324 active site 227377004325 motif 2; other site 227377004326 motif 3; other site 227377004327 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 227377004328 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 227377004329 E-class dimer interface [polypeptide binding]; other site 227377004330 P-class dimer interface [polypeptide binding]; other site 227377004331 active site 227377004332 Cu2+ binding site [ion binding]; other site 227377004333 Zn2+ binding site [ion binding]; other site 227377004334 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 227377004335 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 227377004336 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 227377004337 active site 227377004338 NTP binding site [chemical binding]; other site 227377004339 metal binding triad [ion binding]; metal-binding site 227377004340 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 227377004341 Uncharacterized conserved protein [Function unknown]; Region: COG1565 227377004342 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 227377004343 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 227377004344 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 227377004345 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 227377004346 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 227377004347 active site 227377004348 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl19158 227377004349 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 227377004350 active site 227377004351 GIY-YIG motif/motif A; other site 227377004352 catalytic site [active] 227377004353 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 227377004354 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 227377004355 substrate binding site; other site 227377004356 tetramer interface; other site 227377004357 hypothetical protein; Provisional; Region: PRK07208 227377004358 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 227377004359 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 227377004360 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; cl19130 227377004361 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 227377004362 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 227377004363 extended (e) SDRs; Region: SDR_e; cd08946 227377004364 NAD(P) binding site [chemical binding]; other site 227377004365 active site 227377004366 substrate binding site [chemical binding]; other site 227377004367 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 227377004368 hydroxyglutarate oxidase; Provisional; Region: PRK11728; cl19156 227377004369 Predicted dehydrogenase [General function prediction only]; Region: COG0579 227377004370 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 227377004371 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 227377004372 5S rRNA interface [nucleotide binding]; other site 227377004373 CTC domain interface [polypeptide binding]; other site 227377004374 L16 interface [polypeptide binding]; other site 227377004375 Ribosomal protein TL5, C-terminal domain; Region: Ribosomal_TL5_C; pfam14693 227377004376 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 227377004377 putative active site [active] 227377004378 catalytic residue [active] 227377004379 GTP-binding protein YchF; Reviewed; Region: PRK09601 227377004380 YchF GTPase; Region: YchF; cd01900 227377004381 G1 box; other site 227377004382 GTP/Mg2+ binding site [chemical binding]; other site 227377004383 Switch I region; other site 227377004384 G2 box; other site 227377004385 Switch II region; other site 227377004386 G3 box; other site 227377004387 G4 box; other site 227377004388 G5 box; other site 227377004389 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 227377004390 Protein of unknown function (DUF2992); Region: DUF2992; pfam11208 227377004391 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl19158 227377004392 GtrA-like protein; Region: GtrA; pfam04138 227377004393 TPR repeat; Region: TPR_11; pfam13414 227377004394 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 227377004395 binding surface 227377004396 TPR motif; other site 227377004397 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 227377004398 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 227377004399 substrate binding site [chemical binding]; other site 227377004400 oxyanion hole (OAH) forming residues; other site 227377004401 trimer interface [polypeptide binding]; other site 227377004402 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 227377004403 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 227377004404 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 227377004405 Walker A/P-loop; other site 227377004406 ATP binding site [chemical binding]; other site 227377004407 Q-loop/lid; other site 227377004408 ABC transporter signature motif; other site 227377004409 Walker B; other site 227377004410 D-loop; other site 227377004411 H-loop/switch region; other site 227377004412 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 227377004413 Walker A/P-loop; other site 227377004414 ATP binding site [chemical binding]; other site 227377004415 Q-loop/lid; other site 227377004416 ABC transporter signature motif; other site 227377004417 Walker B; other site 227377004418 D-loop; other site 227377004419 H-loop/switch region; other site 227377004420 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 227377004421 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 227377004422 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 227377004423 dimer interface [polypeptide binding]; other site 227377004424 conserved gate region; other site 227377004425 putative PBP binding loops; other site 227377004426 ABC-ATPase subunit interface; other site 227377004427 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 227377004428 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 227377004429 dimer interface [polypeptide binding]; other site 227377004430 conserved gate region; other site 227377004431 putative PBP binding loops; other site 227377004432 ABC-ATPase subunit interface; other site 227377004433 KamA family protein; Region: TIGR00238; cl15377 227377004434 Radical SAM superfamily; Region: Radical_SAM; pfam04055 227377004435 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 227377004436 FeS/SAM binding site; other site 227377004437 Bacterial PH domain; Region: bPH_2; pfam03703 227377004438 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 227377004439 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 227377004440 CAP-like domain; other site 227377004441 active site 227377004442 primary dimer interface [polypeptide binding]; other site 227377004443 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 227377004444 diiron binding motif [ion binding]; other site 227377004445 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 227377004446 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 227377004447 glutamine binding [chemical binding]; other site 227377004448 catalytic triad [active] 227377004449 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 227377004450 substrate binding site [chemical binding]; other site 227377004451 hexamer interface [polypeptide binding]; other site 227377004452 metal binding site [ion binding]; metal-binding site 227377004453 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 227377004454 Protein of unknown function (DUF456); Region: DUF456; pfam04306 227377004455 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 227377004456 putative metal binding site [ion binding]; other site 227377004457 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 227377004458 HSP70 interaction site [polypeptide binding]; other site 227377004459 Glutamate-cysteine ligase; Region: GshA; pfam08886 227377004460 glutathione synthetase; Provisional; Region: PRK05246 227377004461 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 227377004462 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 227377004463 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 227377004464 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 227377004465 S-adenosylmethionine binding site [chemical binding]; other site 227377004466 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 227377004467 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 227377004468 Walker A motif; other site 227377004469 ATP binding site [chemical binding]; other site 227377004470 Walker B motif; other site 227377004471 arginine finger; other site 227377004472 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 227377004473 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 227377004474 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 227377004475 active site 227377004476 catalytic residues [active] 227377004477 metal binding site [ion binding]; metal-binding site 227377004478 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 227377004479 Rubredoxin [Energy production and conversion]; Region: COG1773 227377004480 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 227377004481 iron binding site [ion binding]; other site 227377004482 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 227377004483 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 227377004484 inhibitor-cofactor binding pocket; inhibition site 227377004485 pyridoxal 5'-phosphate binding site [chemical binding]; other site 227377004486 catalytic residue [active] 227377004487 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 227377004488 Predicted small integral membrane protein (DUF2165); Region: DUF2165; pfam09933 227377004489 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 227377004490 Transglycosylase; Region: Transgly; pfam00912 227377004491 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 227377004492 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 227377004493 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 227377004494 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 227377004495 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 227377004496 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 227377004497 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 227377004498 ADP binding site [chemical binding]; other site 227377004499 magnesium binding site [ion binding]; other site 227377004500 putative shikimate binding site; other site 227377004501 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 227377004502 active site 227377004503 dimer interface [polypeptide binding]; other site 227377004504 metal binding site [ion binding]; metal-binding site 227377004505 Protein of unknown function (DUF1658); Region: DUF1658; pfam07871 227377004506 H+ Antiporter protein; Region: 2A0121; TIGR00900 227377004507 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 227377004508 putative substrate translocation pore; other site 227377004509 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 227377004510 Transposase; Region: DEDD_Tnp_IS110; pfam01548 227377004511 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 227377004512 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 227377004513 S-adenosylmethionine binding site [chemical binding]; other site 227377004514 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 227377004515 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 227377004516 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 227377004517 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 227377004518 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 227377004519 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 227377004520 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 227377004521 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 227377004522 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 227377004523 P loop; other site 227377004524 GTP binding site [chemical binding]; other site 227377004525 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 227377004526 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 227377004527 Walker A/P-loop; other site 227377004528 ATP binding site [chemical binding]; other site 227377004529 Q-loop/lid; other site 227377004530 ABC transporter signature motif; other site 227377004531 Walker B; other site 227377004532 D-loop; other site 227377004533 H-loop/switch region; other site 227377004534 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 227377004535 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 227377004536 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 227377004537 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 227377004538 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 227377004539 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 227377004540 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 227377004541 Carbamoyl-phosphate synthetase large chain, oligomerization domain; Region: CPSase_L_D3; cl19748 227377004542 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 227377004543 DNA binding residues [nucleotide binding] 227377004544 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 227377004545 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 227377004546 catalytic residues [active] 227377004547 Protein of unknown function (DUF1658); Region: DUF1658; pfam07871 227377004548 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 227377004549 dimer interface [polypeptide binding]; other site 227377004550 motif 1; other site 227377004551 active site 227377004552 motif 2; other site 227377004553 motif 3; other site 227377004554 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 227377004555 Glycyl-tRNA synthetase beta subunit; Region: tRNA_synt_2f; pfam02092 227377004556 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 227377004557 16S rRNA methyltransferase B; Provisional; Region: PRK10901 227377004558 N-terminal RNA binding domain of the methyltransferase Sun. The rRNA-specific 5-methylcytidine transferase Sun, also known as RrmB or Fmu shares the RNA-binding non-catalytic domain with the transcription termination factor NusB. The precise biological...; Region: Methyltransferase_Sun; cd00620 227377004559 putative RNA binding site [nucleotide binding]; other site 227377004560 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 227377004561 S-adenosylmethionine binding site [chemical binding]; other site 227377004562 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 227377004563 Ligand Binding Site [chemical binding]; other site 227377004564 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 227377004565 Ribonuclease P; Region: Ribonuclease_P; pfam00825 227377004566 hypothetical protein; Provisional; Region: PRK14384 227377004567 membrane protein insertase; Provisional; Region: PRK01318 227377004568 YidC periplasmic domain; Region: YidC_periplas; pfam14849 227377004569 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 227377004570 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 227377004571 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 227377004572 trmE is a tRNA modification GTPase; Region: trmE; cd04164 227377004573 G1 box; other site 227377004574 GTP/Mg2+ binding site [chemical binding]; other site 227377004575 Switch I region; other site 227377004576 G2 box; other site 227377004577 Switch II region; other site 227377004578 G3 box; other site 227377004579 G4 box; other site 227377004580 G5 box; other site 227377004581 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 227377004582 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 227377004583 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 227377004584 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 227377004585 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 227377004586 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 227377004587 S-adenosylmethionine binding site [chemical binding]; other site 227377004588 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 227377004589 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 227377004590 P-loop; other site 227377004591 Magnesium ion binding site [ion binding]; other site 227377004592 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 227377004593 ParB-like nuclease domain; Region: ParB; smart00470 227377004594 KorB domain; Region: KorB; pfam08535 227377004595 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 227377004596 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 227377004597 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 227377004598 acyl-activating enzyme (AAE) consensus motif; other site 227377004599 active site 227377004600 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 227377004601 putative acyl-acceptor binding pocket; other site 227377004602 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 227377004603 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 227377004604 putative substrate translocation pore; other site 227377004605 Ku-homolog [Replication, recombination, and repair]; Region: COG1273 227377004606 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 227377004607 putative DNA binding site [nucleotide binding]; other site 227377004608 putative homodimer interface [polypeptide binding]; other site 227377004609 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 227377004610 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 227377004611 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 227377004612 active site 227377004613 DNA binding site [nucleotide binding] 227377004614 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 227377004615 DNA binding site [nucleotide binding] 227377004616 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 227377004617 nucleotide binding site [chemical binding]; other site 227377004618 Protein of unknown function (DUF1658); Region: DUF1658; pfam07871 227377004619 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 227377004620 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 227377004621 ATP synthase I chain; Region: ATP_synt_I; cl09170 227377004622 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 227377004623 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 227377004624 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 227377004625 F0F1 ATP synthase subunit B; Provisional; Region: PRK14471; cl17192 227377004626 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 227377004627 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 227377004628 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 227377004629 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 227377004630 beta subunit interaction interface [polypeptide binding]; other site 227377004631 Walker A motif; other site 227377004632 ATP binding site [chemical binding]; other site 227377004633 Walker B motif; other site 227377004634 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 227377004635 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 227377004636 core domain interface [polypeptide binding]; other site 227377004637 delta subunit interface [polypeptide binding]; other site 227377004638 epsilon subunit interface [polypeptide binding]; other site 227377004639 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 227377004640 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 227377004641 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 227377004642 alpha subunit interaction interface [polypeptide binding]; other site 227377004643 Walker A motif; other site 227377004644 ATP binding site [chemical binding]; other site 227377004645 Walker B motif; other site 227377004646 inhibitor binding site; inhibition site 227377004647 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 227377004648 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 227377004649 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 227377004650 gamma subunit interface [polypeptide binding]; other site 227377004651 epsilon subunit interface [polypeptide binding]; other site 227377004652 LBP interface [polypeptide binding]; other site 227377004653 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 227377004654 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 227377004655 Substrate binding site; other site 227377004656 Mg++ binding site; other site 227377004657 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 227377004658 active site 227377004659 substrate binding site [chemical binding]; other site 227377004660 CoA binding site [chemical binding]; other site 227377004661 Protein of unknown function (DUF1658); Region: DUF1658; pfam07871 227377004662 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 227377004663 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 227377004664 ABC transporter; Region: ABC_tran_2; pfam12848 227377004665 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 227377004666 (2R)-phospho-3-sulfolactate synthase (ComA); Region: ComA; pfam02679 227377004667 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 227377004668 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 227377004669 ligand binding site [chemical binding]; other site 227377004670 homodimer interface [polypeptide binding]; other site 227377004671 NAD(P) binding site [chemical binding]; other site 227377004672 trimer interface B [polypeptide binding]; other site 227377004673 trimer interface A [polypeptide binding]; other site 227377004674 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 227377004675 NAD(P) transhydrogenase beta subunit; Region: PNTB; cl00566 227377004676 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 227377004677 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 227377004678 Transposase; Region: DEDD_Tnp_IS110; pfam01548 227377004679 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 227377004680 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 227377004681 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 227377004682 S-adenosylmethionine binding site [chemical binding]; other site 227377004683 peptide chain release factor 1; Validated; Region: prfA; PRK00591 227377004684 This domain is found in peptide chain release factors; Region: PCRF; smart00937 227377004685 RF-1 domain; Region: RF-1; pfam00472 227377004686 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 227377004687 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 227377004688 tRNA; other site 227377004689 putative tRNA binding site [nucleotide binding]; other site 227377004690 putative NADP binding site [chemical binding]; other site 227377004691 Glutamyl-tRNAGlu reductase, dimerization domain; Region: GlutR_dimer; pfam00745 227377004692 multidrug resistance protein D; Provisional; Region: emrD; PRK11652 227377004693 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 227377004694 putative substrate translocation pore; other site 227377004695 Dihydroneopterin aldolase; Region: FolB; smart00905 227377004696 active site 227377004697 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 227377004698 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 227377004699 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 227377004700 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 227377004701 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; cl02361 227377004702 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 227377004703 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; cl17315 227377004704 DNA binding residues [nucleotide binding] 227377004705 dimerization interface [polypeptide binding]; other site 227377004706 Predicted esterase [General function prediction only]; Region: COG0400 227377004707 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 227377004708 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 227377004709 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 227377004710 Substrate binding site; other site 227377004711 metal-binding site 227377004712 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 227377004713 Phosphotransferase enzyme family; Region: APH; pfam01636 227377004714 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 227377004715 OstA-like protein; Region: OstA; cl00844 227377004716 Organic solvent tolerance protein; Region: OstA_C; pfam04453 227377004717 SurA N-terminal domain; Region: SurA_N; pfam09312 227377004718 nitrogen fixation protein NifM; Region: nifM_nitrog; TIGR02933 227377004719 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 227377004720 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 227377004721 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 227377004722 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 227377004723 Ligand Binding Site [chemical binding]; other site 227377004724 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 227377004725 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 227377004726 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 227377004727 tandem repeat interface [polypeptide binding]; other site 227377004728 oligomer interface [polypeptide binding]; other site 227377004729 active site residues [active] 227377004730 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 227377004731 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 227377004732 active site 227377004733 metal binding site [ion binding]; metal-binding site 227377004734 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 227377004735 Transposase; Region: DEDD_Tnp_IS110; pfam01548 227377004736 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 227377004737 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 227377004738 Plasmid encoded toxin Txe; Region: Plasmid_Txe; pfam06769 227377004739 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 227377004740 folate binding site [chemical binding]; other site 227377004741 NADP+ binding site [chemical binding]; other site 227377004742 Uncharacterized BCR, COG1636; Region: DUF208; pfam02677 227377004743 acylphosphatase; Provisional; Region: PRK14437 227377004744 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 227377004745 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 227377004746 active site 227377004747 motif I; other site 227377004748 motif II; other site 227377004749 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 227377004750 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 227377004751 putative active site [active] 227377004752 substrate binding site [chemical binding]; other site 227377004753 putative cosubstrate binding site; other site 227377004754 catalytic site [active] 227377004755 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 227377004756 substrate binding site [chemical binding]; other site 227377004757 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 227377004758 Protein of unknown function (DUF494); Region: DUF494; pfam04361 227377004759 DNA topoisomerase I; Validated; Region: PRK06599 227377004760 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 227377004761 active site 227377004762 interdomain interaction site; other site 227377004763 putative metal-binding site [ion binding]; other site 227377004764 nucleotide binding site [chemical binding]; other site 227377004765 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 227377004766 domain I; other site 227377004767 DNA binding groove [nucleotide binding] 227377004768 phosphate binding site [ion binding]; other site 227377004769 domain II; other site 227377004770 domain III; other site 227377004771 nucleotide binding site [chemical binding]; other site 227377004772 catalytic site [active] 227377004773 domain IV; other site 227377004774 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 227377004775 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 227377004776 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 227377004777 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 227377004778 AIR carboxylase; Region: AIRC; pfam00731 227377004779 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 227377004780 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 227377004781 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 227377004782 putative active site [active] 227377004783 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 227377004784 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 227377004785 dimerization interface [polypeptide binding]; other site 227377004786 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 227377004787 dimer interface [polypeptide binding]; other site 227377004788 phosphorylation site [posttranslational modification] 227377004789 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 227377004790 ATP binding site [chemical binding]; other site 227377004791 Mg2+ binding site [ion binding]; other site 227377004792 G-X-G motif; other site 227377004793 osmolarity response regulator; Provisional; Region: ompR; PRK09468 227377004794 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 227377004795 active site 227377004796 phosphorylation site [posttranslational modification] 227377004797 intermolecular recognition site; other site 227377004798 dimerization interface [polypeptide binding]; other site 227377004799 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 227377004800 DNA binding site [nucleotide binding] 227377004801 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 227377004802 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 227377004803 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 227377004804 active site 227377004805 HIGH motif; other site 227377004806 Protein of unknown function (DUF1451); Region: DUF1451; cl19727 227377004807 KMSK motif region; other site 227377004808 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 227377004809 tRNA binding surface [nucleotide binding]; other site 227377004810 anticodon binding site; other site 227377004811 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 227377004812 GtrA-like protein; Region: GtrA; pfam04138 227377004813 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 227377004814 active site 227377004815 HslU subunit interaction site [polypeptide binding]; other site 227377004816 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 227377004817 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 227377004818 Walker A motif; other site 227377004819 ATP binding site [chemical binding]; other site 227377004820 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 227377004821 Walker B motif; other site 227377004822 arginine finger; other site 227377004823 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 227377004824 Predicted membrane protein [Function unknown]; Region: COG2323 227377004825 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl18962 227377004826 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 227377004827 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 227377004828 S-adenosylmethionine binding site [chemical binding]; other site 227377004829 SCP-2 sterol transfer family; Region: SCP2; cl01225 227377004830 ABC1 family; Region: ABC1; cl17513 227377004831 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 227377004832 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 227377004833 AAA domain; Region: AAA_14; pfam13173 227377004834 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 227377004835 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 227377004836 Membrane fusogenic activity; Region: BMFP; cl01115 227377004837 cysteine synthase; Region: PLN02565 227377004838 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 227377004839 dimer interface [polypeptide binding]; other site 227377004840 pyridoxal 5'-phosphate binding site [chemical binding]; other site 227377004841 catalytic residue [active] 227377004842 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 227377004843 homodimer interface [polypeptide binding]; other site 227377004844 substrate-cofactor binding pocket; other site 227377004845 pyridoxal 5'-phosphate binding site [chemical binding]; other site 227377004846 catalytic residue [active] 227377004847 Bacterial SH3 domain; Region: SH3_3; pfam08239 227377004848 S-adenosylmethionine synthetase; Validated; Region: PRK05250 227377004849 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 227377004850 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 227377004851 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 227377004852 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 227377004853 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 227377004854 homotetramer interface [polypeptide binding]; other site 227377004855 ligand binding site [chemical binding]; other site 227377004856 catalytic site [active] 227377004857 NAD binding site [chemical binding]; other site 227377004858 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 227377004859 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 227377004860 metal binding site [ion binding]; metal-binding site 227377004861 active site 227377004862 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 227377004863 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 227377004864 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 227377004865 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 227377004866 HlyD family secretion protein; Region: HlyD_3; pfam13437 227377004867 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 227377004868 PAS domain; Region: PAS_9; pfam13426 227377004869 putative active site [active] 227377004870 heme pocket [chemical binding]; other site 227377004871 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 227377004872 FAD binding site [chemical binding]; other site 227377004873 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 227377004874 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 227377004875 THF binding site; other site 227377004876 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 227377004877 substrate binding site [chemical binding]; other site 227377004878 THF binding site; other site 227377004879 zinc-binding site [ion binding]; other site 227377004880 tryptophanyl-tRNA synthetase; Reviewed; Region: PRK00927 227377004881 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 227377004882 active site 227377004883 HIGH motif; other site 227377004884 dimer interface [polypeptide binding]; other site 227377004885 KMSKS motif; other site 227377004886 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 227377004887 Part of AAA domain; Region: AAA_19; pfam13245 227377004888 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 227377004889 ZIP Zinc transporter; Region: Zip; cl00437 227377004890 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 227377004891 Domain of unknown function (DUF4351); Region: DUF4351; pfam14261 227377004892 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 227377004893 metabolite-proton symporter; Region: 2A0106; TIGR00883 227377004894 putative substrate translocation pore; other site 227377004895 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 227377004896 N-acetyl-D-glucosamine binding site [chemical binding]; other site 227377004897 catalytic residue [active] 227377004898 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 227377004899 Major Facilitator Superfamily; Region: MFS_1; pfam07690 227377004900 putative substrate translocation pore; other site 227377004901 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 227377004902 putative substrate translocation pore; other site 227377004903 thymidine kinase; Provisional; Region: PRK04296 227377004904 Chorismate mutase type II; Region: CM_2; pfam01817 227377004905 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 227377004906 putative acyl-acceptor binding pocket; other site 227377004907 porphobilinogen deaminase; Region: hemC; TIGR00212 227377004908 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 227377004909 domain interfaces; other site 227377004910 active site 227377004911 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 227377004912 active site 227377004913 catalytic residue [active] 227377004914 dimer interface [polypeptide binding]; other site 227377004915 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 227377004916 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 227377004917 active site 227377004918 Fic family protein [Function unknown]; Region: COG3177 227377004919 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 227377004920 Fic/DOC family; Region: Fic; pfam02661 227377004921 HemX; Region: HemX; cl19375 227377004922 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 227377004923 HemY protein N-terminus; Region: HemY_N; pfam07219 227377004924 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 227377004925 binding surface 227377004926 TPR motif; other site 227377004927 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 227377004928 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 227377004929 Ligand Binding Site [chemical binding]; other site 227377004930 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5304 227377004931 transcription termination factor Rho; Provisional; Region: rho; PRK09376 227377004932 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 227377004933 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 227377004934 RNA binding site [nucleotide binding]; other site 227377004935 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 227377004936 multimer interface [polypeptide binding]; other site 227377004937 Walker A motif; other site 227377004938 ATP binding site [chemical binding]; other site 227377004939 Walker B motif; other site 227377004940 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 227377004941 catalytic residues [active] 227377004942 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 227377004943 Na2 binding site [ion binding]; other site 227377004944 putative substrate binding site 1 [chemical binding]; other site 227377004945 Na binding site 1 [ion binding]; other site 227377004946 putative substrate binding site 2 [chemical binding]; other site 227377004947 YGGT family; Region: YGGT; pfam02325 227377004948 YGGT family; Region: YGGT; pfam02325 227377004949 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 227377004950 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 227377004951 Pyrroline-5-carboxylate reductase dimerization; Region: P5CR_dimer; pfam14748 227377004952 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 227377004953 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 227377004954 catalytic residue [active] 227377004955 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 227377004956 active site 227377004957 substrate-binding site [chemical binding]; other site 227377004958 metal-binding site [ion binding] 227377004959 ATP binding site [chemical binding]; other site 227377004960 hypothetical protein; Validated; Region: PRK00228 227377004961 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 227377004962 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK13814 227377004963 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 227377004964 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 227377004965 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 227377004966 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 227377004967 non-specific DNA binding site [nucleotide binding]; other site 227377004968 salt bridge; other site 227377004969 sequence-specific DNA binding site [nucleotide binding]; other site 227377004970 Fic/DOC family; Region: Fic; cl00960 227377004971 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 227377004972 INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in...; Region: INT_SG1_C; cd01183 227377004973 Int/Topo IB signature motif; other site 227377004974 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 227377004975 Coxiella burnetii protein of unknown function (DUF807); Region: DUF807; pfam05660 227377004976 Coxiella burnetii protein of unknown function (DUF762); Region: DUF762; pfam05555 227377004977 Septum formation initiator; Region: DivIC; cl17659 227377004978 Subunit B of Class III Extradiol ring-cleavage dioxygenases; Region: Extradiol_Dioxygenase_3B_like; cl00599 227377004979 Coxiella burnetii protein of unknown function (DUF762); Region: DUF762; pfam05555 227377004980 Coxiella burnetii protein of unknown function (DUF807); Region: DUF807; pfam05660 227377004981 Predicted transcriptional regulator [Transcription]; Region: COG2944 227377004982 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 227377004983 non-specific DNA binding site [nucleotide binding]; other site 227377004984 salt bridge; other site 227377004985 sequence-specific DNA binding site [nucleotide binding]; other site 227377004986 Protein of unknown function (DUF1044); Region: DUF1044; pfam06296 227377004987 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 227377004988 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 227377004989 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 227377004990 active site 227377004991 metal binding site [ion binding]; metal-binding site 227377004992 hexamer interface [polypeptide binding]; other site 227377004993 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 227377004994 ParB-like nuclease domain; Region: ParBc; pfam02195 227377004995 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 227377004996 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 227377004997 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 227377004998 P-loop; other site 227377004999 Magnesium ion binding site [ion binding]; other site 227377005000 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 227377005001 ParB-like nuclease domain; Region: ParBc; pfam02195 227377005002 Initiator Replication protein; Region: Rep_3; pfam01051