-- dump date 20140619_162948 -- class Genbank::misc_feature -- table misc_feature_note -- id note 242231000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 242231000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 242231000003 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 242231000004 Walker A motif; other site 242231000005 ATP binding site [chemical binding]; other site 242231000006 Walker B motif; other site 242231000007 arginine finger; other site 242231000008 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 242231000009 DnaA box-binding interface [nucleotide binding]; other site 242231000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 242231000011 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 242231000012 putative DNA binding surface [nucleotide binding]; other site 242231000013 dimer interface [polypeptide binding]; other site 242231000014 beta-clamp/clamp loader binding surface; other site 242231000015 beta-clamp/translesion DNA polymerase binding surface; other site 242231000016 polyphosphate kinase; Provisional; Region: PRK05443 242231000017 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 242231000018 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 242231000019 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 242231000020 putative domain interface [polypeptide binding]; other site 242231000021 putative active site [active] 242231000022 catalytic site [active] 242231000023 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 242231000024 putative domain interface [polypeptide binding]; other site 242231000025 putative active site [active] 242231000026 catalytic site [active] 242231000027 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 242231000028 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 242231000029 HIGH motif; other site 242231000030 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 242231000031 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 242231000032 active site 242231000033 KMSKS motif; other site 242231000034 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 242231000035 tRNA binding surface [nucleotide binding]; other site 242231000036 Dam-replacing family; Region: DRP; pfam06044 242231000037 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 242231000038 DNA methylase; Region: N6_N4_Mtase; pfam01555 242231000039 Predicted transcriptional regulator [Transcription]; Region: COG2944 242231000040 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 242231000041 non-specific DNA binding site [nucleotide binding]; other site 242231000042 salt bridge; other site 242231000043 sequence-specific DNA binding site [nucleotide binding]; other site 242231000044 Preprotein translocase SecG subunit; Region: SecG; pfam03840 242231000045 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 242231000046 substrate binding site [chemical binding]; other site 242231000047 dimer interface [polypeptide binding]; other site 242231000048 catalytic triad [active] 242231000049 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 242231000050 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 242231000051 S-adenosylmethionine binding site [chemical binding]; other site 242231000052 Member of the Rhodanese Homology Domain superfamily, subgroup 2. Subgroup 2 includes uncharacterized putative rhodanese-related domains; Region: RHOD_2; cd01528 242231000053 active site residue [active] 242231000054 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 242231000055 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 242231000056 N-terminal plug; other site 242231000057 ligand-binding site [chemical binding]; other site 242231000058 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 242231000059 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 242231000060 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 242231000061 putative ligand binding residues [chemical binding]; other site 242231000062 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 242231000063 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 242231000064 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 242231000065 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 242231000066 amino-acid N-acetyltransferase; Region: N-Ac-Glu-synth; TIGR01890 242231000067 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 242231000068 putative feedback inhibition sensing region; other site 242231000069 putative nucleotide binding site [chemical binding]; other site 242231000070 putative substrate binding site [chemical binding]; other site 242231000071 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 242231000072 Coenzyme A binding pocket [chemical binding]; other site 242231000073 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 242231000074 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 242231000075 active site 242231000076 Uracil-DNA glycosylase [DNA replication, recombination, and repair]; Region: COG1573 242231000077 active site 242231000078 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 242231000079 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 242231000080 Coenzyme A binding pocket [chemical binding]; other site 242231000081 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 242231000082 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 242231000083 Glycoprotease family; Region: Peptidase_M22; pfam00814 242231000084 Lipoprotein GNA1870 C terminal like; Region: Lipoprot_C; pfam08794 242231000085 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 242231000086 intersubunit interface [polypeptide binding]; other site 242231000087 active site 242231000088 zinc binding site [ion binding]; other site 242231000089 Na+ binding site [ion binding]; other site 242231000090 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 242231000091 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 242231000092 active site 242231000093 Int/Topo IB signature motif; other site 242231000094 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 242231000095 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 242231000096 TPP-binding site; other site 242231000097 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 242231000098 PYR/PP interface [polypeptide binding]; other site 242231000099 dimer interface [polypeptide binding]; other site 242231000100 TPP binding site [chemical binding]; other site 242231000101 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 242231000102 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 242231000103 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 242231000104 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 242231000105 FeS/SAM binding site; other site 242231000106 TRAM domain; Region: TRAM; pfam01938 242231000107 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 242231000108 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 242231000109 inhibitor-cofactor binding pocket; inhibition site 242231000110 pyridoxal 5'-phosphate binding site [chemical binding]; other site 242231000111 catalytic residue [active] 242231000112 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 242231000113 catalytic site [active] 242231000114 putative active site [active] 242231000115 putative substrate binding site [chemical binding]; other site 242231000116 dimer interface [polypeptide binding]; other site 242231000117 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 242231000118 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 242231000119 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 242231000120 S-adenosylmethionine binding site [chemical binding]; other site 242231000121 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 242231000122 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 242231000123 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 242231000124 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 242231000125 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 242231000126 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 242231000127 carboxyltransferase (CT) interaction site; other site 242231000128 biotinylation site [posttranslational modification]; other site 242231000129 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 242231000130 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 242231000131 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 242231000132 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 242231000133 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; smart01096 242231000134 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 242231000135 ATP-grasp domain; Region: ATP-grasp_4; cl17255 242231000136 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 242231000137 IMP binding site; other site 242231000138 dimer interface [polypeptide binding]; other site 242231000139 interdomain contacts; other site 242231000140 partial ornithine binding site; other site 242231000141 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 242231000142 putative active site [active] 242231000143 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 242231000144 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 242231000145 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 242231000146 catalytic site [active] 242231000147 subunit interface [polypeptide binding]; other site 242231000148 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 242231000149 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 242231000150 antiporter inner membrane protein; Provisional; Region: PRK11670 242231000151 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 242231000152 Walker A motif; other site 242231000153 TlpA-like family, suppressor for copper sensitivity D protein (ScsD) and actinobacterial DsbE homolog subfamily; composed of ScsD, the DsbE homolog of Mycobacterium tuberculosis (MtbDsbE) and similar proteins, all containing a redox-active CXXC motif; Region: TlpA_like_ScsD_MtbDsbE; cd03011 242231000154 catalytic residues [active] 242231000155 homoprotocatechuate degradation operon regulator, HpaR; Region: HpaR; TIGR02337 242231000156 Transcriptional regulators [Transcription]; Region: MarR; COG1846 242231000157 4-hydroxyphenylacetate 3-monooxygenase, reductase component; Region: HpaC; TIGR02296 242231000158 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 242231000159 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 242231000160 Substrate binding site; other site 242231000161 metal-binding site 242231000162 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 242231000163 Potassium binding sites [ion binding]; other site 242231000164 Cesium cation binding sites [ion binding]; other site 242231000165 GTP-binding protein YchF; Reviewed; Region: PRK09601 242231000166 YchF GTPase; Region: YchF; cd01900 242231000167 G1 box; other site 242231000168 GTP/Mg2+ binding site [chemical binding]; other site 242231000169 Switch I region; other site 242231000170 G2 box; other site 242231000171 Switch II region; other site 242231000172 G3 box; other site 242231000173 G4 box; other site 242231000174 G5 box; other site 242231000175 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 242231000176 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 242231000177 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 242231000178 catalytic triad [active] 242231000179 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 242231000180 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 242231000181 active site 242231000182 HIGH motif; other site 242231000183 dimer interface [polypeptide binding]; other site 242231000184 KMSKS motif; other site 242231000185 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 242231000186 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 242231000187 active site 242231000188 Riboflavin kinase; Region: Flavokinase; smart00904 242231000189 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 242231000190 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 242231000191 active site 242231000192 HIGH motif; other site 242231000193 nucleotide binding site [chemical binding]; other site 242231000194 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 242231000195 active site 242231000196 KMSKS motif; other site 242231000197 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 242231000198 tRNA binding surface [nucleotide binding]; other site 242231000199 anticodon binding site; other site 242231000200 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 242231000201 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 242231000202 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 242231000203 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Region: lytB_ispH; cd13944 242231000204 Fe-S cluster binding site [ion binding]; other site 242231000205 substrate binding site [chemical binding]; other site 242231000206 catalytic site [active] 242231000207 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 242231000208 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 242231000209 motif II; other site 242231000210 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 242231000211 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819; cl19187 242231000212 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 242231000213 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 242231000214 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 242231000215 putative active site [active] 242231000216 putative PHP Thumb interface [polypeptide binding]; other site 242231000217 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 242231000218 Helix-hairpin-helix motif; Region: HHH_6; pfam14579 242231000219 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 242231000220 generic binding surface II; other site 242231000221 generic binding surface I; other site 242231000222 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 242231000223 RNA binding surface [nucleotide binding]; other site 242231000224 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 242231000225 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 242231000226 active site 242231000227 valine--pyruvate transaminase; Provisional; Region: avtA; PRK09440 242231000228 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 242231000229 pyridoxal 5'-phosphate binding site [chemical binding]; other site 242231000230 homodimer interface [polypeptide binding]; other site 242231000231 catalytic residue [active] 242231000232 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 242231000233 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 242231000234 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 242231000235 NAD(P) binding site [chemical binding]; other site 242231000236 homodimer interface [polypeptide binding]; other site 242231000237 substrate binding site [chemical binding]; other site 242231000238 active site 242231000239 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 242231000240 inhibitor-cofactor binding pocket; inhibition site 242231000241 pyridoxal 5'-phosphate binding site [chemical binding]; other site 242231000242 catalytic residue [active] 242231000243 Bacterial sugar transferase; Region: Bac_transf; pfam02397 242231000244 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 242231000245 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 242231000246 putative trimer interface [polypeptide binding]; other site 242231000247 putative CoA binding site [chemical binding]; other site 242231000248 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 242231000249 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 242231000250 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 242231000251 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 242231000252 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 242231000253 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 242231000254 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 242231000255 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 242231000256 catalytic motif [active] 242231000257 Zn binding site [ion binding]; other site 242231000258 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 242231000259 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 242231000260 ATP cone domain; Region: ATP-cone; pfam03477 242231000261 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 242231000262 putative active site [active] 242231000263 Glutamine amidotransferases class-II; Region: GATase_2; pfam00310 242231000264 putative dimer interface [polypeptide binding]; other site 242231000265 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 242231000266 active site 242231000267 dimer interface [polypeptide binding]; other site 242231000268 metal binding site [ion binding]; metal-binding site 242231000269 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 242231000270 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 242231000271 ADP binding site [chemical binding]; other site 242231000272 magnesium binding site [ion binding]; other site 242231000273 putative shikimate binding site; other site 242231000274 AMIN domain; Region: AMIN; pfam11741 242231000275 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 242231000276 Secretin and TonB N terminus short domain; Region: STN; smart00965 242231000277 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 242231000278 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 242231000279 Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilP; COG3168 242231000280 Pilus assembly protein, PilO; Region: PilO; cl01234 242231000281 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 242231000282 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 242231000283 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 242231000284 Transglycosylase; Region: Transgly; pfam00912 242231000285 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 242231000286 Predicted GTPase [General function prediction only]; Region: COG0218 242231000287 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 242231000288 G1 box; other site 242231000289 GTP/Mg2+ binding site [chemical binding]; other site 242231000290 Switch I region; other site 242231000291 G2 box; other site 242231000292 G3 box; other site 242231000293 Switch II region; other site 242231000294 G4 box; other site 242231000295 G5 box; other site 242231000296 Cytochrome c553 [Energy production and conversion]; Region: COG2863 242231000297 Cytochrome c; Region: Cytochrom_C; pfam00034 242231000298 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; COG1333 242231000299 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 242231000300 UGMP family protein; Validated; Region: PRK09604 242231000301 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 242231000302 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 242231000303 putative acyl-acceptor binding pocket; other site 242231000304 S-adenosylmethionine synthetase; Validated; Region: PRK05250 242231000305 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 242231000306 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 242231000307 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 242231000308 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 242231000309 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; pfam02113 242231000310 Predicted flavoprotein [General function prediction only]; Region: COG0431 242231000311 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 242231000312 Citrate transporter; Region: CitMHS; pfam03600 242231000313 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 242231000314 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 242231000315 dimer interface [polypeptide binding]; other site 242231000316 phosphorylation site [posttranslational modification] 242231000317 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 242231000318 ATP binding site [chemical binding]; other site 242231000319 Mg2+ binding site [ion binding]; other site 242231000320 G-X-G motif; other site 242231000321 ribonuclease G; Provisional; Region: PRK11712 242231000322 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 242231000323 homodimer interface [polypeptide binding]; other site 242231000324 oligonucleotide binding site [chemical binding]; other site 242231000325 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 242231000326 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 242231000327 GSH binding site [chemical binding]; other site 242231000328 catalytic residues [active] 242231000329 protein-export chaperone SecB; Region: secB; TIGR00809 242231000330 SecA binding site; other site 242231000331 Preprotein binding site; other site 242231000332 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 242231000333 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 242231000334 generic binding surface II; other site 242231000335 ssDNA binding site; other site 242231000336 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 242231000337 ATP binding site [chemical binding]; other site 242231000338 putative Mg++ binding site [ion binding]; other site 242231000339 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 242231000340 nucleotide binding region [chemical binding]; other site 242231000341 ATP-binding site [chemical binding]; other site 242231000342 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 242231000343 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; pfam01118 242231000344 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl19935 242231000345 ribonuclease BN/unknown domain fusion protein; Reviewed; Region: rbn; PRK04214 242231000346 Uncharacterized conserved protein [Function unknown]; Region: COG2850 242231000347 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 242231000348 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 242231000349 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 242231000350 FAD binding pocket [chemical binding]; other site 242231000351 conserved FAD binding motif [chemical binding]; other site 242231000352 phosphate binding motif [ion binding]; other site 242231000353 NAD binding pocket [chemical binding]; other site 242231000354 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 242231000355 HlyD family secretion protein; Region: HlyD_3; pfam13437 242231000356 ribonuclease BN/unknown domain fusion protein; Reviewed; Region: rbn; PRK04214 242231000357 YihY family inner membrane protein; Region: yihY_not_rbn; TIGR00765 242231000358 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 242231000359 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 242231000360 Ligand Binding Site [chemical binding]; other site 242231000361 Domain of Unknown Function (DUF1543); Region: DUF1543; pfam07566 242231000362 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 242231000363 active site 242231000364 Predicted membrane protein [Function unknown]; Region: COG3759 242231000365 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 242231000366 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 242231000367 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 242231000368 FeS/SAM binding site; other site 242231000369 beta-hexosaminidase; Provisional; Region: PRK05337 242231000370 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 242231000371 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 242231000372 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 242231000373 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 242231000374 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 242231000375 protein binding site [polypeptide binding]; other site 242231000376 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 242231000377 protein binding site [polypeptide binding]; other site 242231000378 endonuclease III; Provisional; Region: PRK10702 242231000379 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 242231000380 minor groove reading motif; other site 242231000381 helix-hairpin-helix signature motif; other site 242231000382 substrate binding pocket [chemical binding]; other site 242231000383 active site 242231000384 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 242231000385 Predicted membrane protein [Function unknown]; Region: COG1238 242231000386 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 242231000387 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 242231000388 putative substrate translocation pore; other site 242231000389 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 242231000390 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 242231000391 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 242231000392 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 242231000393 Transporter associated domain; Region: CorC_HlyC; smart01091 242231000394 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG0319 242231000395 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 242231000396 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 242231000397 domain interfaces; other site 242231000398 active site 242231000399 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 242231000400 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 242231000401 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 242231000402 DEAD-like helicases superfamily; Region: DEXDc; smart00487 242231000403 ATP binding site [chemical binding]; other site 242231000404 Mg++ binding site [ion binding]; other site 242231000405 motif III; other site 242231000406 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 242231000407 nucleotide binding region [chemical binding]; other site 242231000408 ATP-binding site [chemical binding]; other site 242231000409 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 242231000410 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 242231000411 FMN binding site [chemical binding]; other site 242231000412 active site 242231000413 catalytic residues [active] 242231000414 substrate binding site [chemical binding]; other site 242231000415 DNA-binding protein Fis; Provisional; Region: PRK01905 242231000416 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 242231000417 active site 242231000418 putative DNA-binding cleft [nucleotide binding]; other site 242231000419 dimer interface [polypeptide binding]; other site 242231000420 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 242231000421 putative acyl-acceptor binding pocket; other site 242231000422 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 242231000423 active site 242231000424 catalytic site [active] 242231000425 substrate binding site [chemical binding]; other site 242231000426 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 242231000427 aminopeptidase N; Provisional; Region: pepN; PRK14015 242231000428 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 242231000429 active site 242231000430 Zn binding site [ion binding]; other site 242231000431 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 242231000432 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 242231000433 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 242231000434 intersubunit interface [polypeptide binding]; other site 242231000435 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 242231000436 ABC-ATPase subunit interface; other site 242231000437 dimer interface [polypeptide binding]; other site 242231000438 putative PBP binding regions; other site 242231000439 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 242231000440 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 242231000441 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 242231000442 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 242231000443 RimM protein, required for 16S rRNA processing [Translation, ribosomal structure and biogenesis]; Region: RimM; COG0806 242231000444 RimM N-terminal domain; Region: RimM; pfam01782 242231000445 PRC-barrel domain; Region: PRC; pfam05239 242231000446 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 242231000447 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 242231000448 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 242231000449 dimerization interface [polypeptide binding]; other site 242231000450 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 242231000451 dimer interface [polypeptide binding]; other site 242231000452 phosphorylation site [posttranslational modification] 242231000453 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 242231000454 ATP binding site [chemical binding]; other site 242231000455 Mg2+ binding site [ion binding]; other site 242231000456 G-X-G motif; other site 242231000457 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 242231000458 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 242231000459 active site 242231000460 phosphorylation site [posttranslational modification] 242231000461 intermolecular recognition site; other site 242231000462 dimerization interface [polypeptide binding]; other site 242231000463 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 242231000464 DNA binding site [nucleotide binding] 242231000465 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 242231000466 O-Antigen ligase; Region: Wzy_C; pfam04932 242231000467 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 242231000468 Predicted membrane protein (DUF2069); Region: DUF2069; cl01299 242231000469 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 242231000470 active site 242231000471 dimer interface [polypeptide binding]; other site 242231000472 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 242231000473 sec-independent translocase; Provisional; Region: PRK00708 242231000474 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 242231000475 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 242231000476 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 242231000477 nucleotide binding site/active site [active] 242231000478 HIT family signature motif; other site 242231000479 catalytic residue [active] 242231000480 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 242231000481 metal binding site [ion binding]; metal-binding site 242231000482 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 242231000483 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 242231000484 putative NAD(P) binding site [chemical binding]; other site 242231000485 catalytic Zn binding site [ion binding]; other site 242231000486 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 242231000487 putative active site [active] 242231000488 Zn binding site [ion binding]; other site 242231000489 Preprotein translocase subunit; Region: YajC; pfam02699 242231000490 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 242231000491 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 242231000492 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 242231000493 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 242231000494 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 242231000495 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 242231000496 Protein export membrane protein; Region: SecD_SecF; pfam02355 242231000497 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 242231000498 16S/18S rRNA binding site [nucleotide binding]; other site 242231000499 S13e-L30e interaction site [polypeptide binding]; other site 242231000500 25S rRNA binding site [nucleotide binding]; other site 242231000501 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 242231000502 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 242231000503 Walker A/P-loop; other site 242231000504 ATP binding site [chemical binding]; other site 242231000505 Q-loop/lid; other site 242231000506 ABC transporter signature motif; other site 242231000507 Walker B; other site 242231000508 D-loop; other site 242231000509 H-loop/switch region; other site 242231000510 TOBE domain; Region: TOBE_2; pfam08402 242231000511 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 242231000512 dimer interface [polypeptide binding]; other site 242231000513 conserved gate region; other site 242231000514 putative PBP binding loops; other site 242231000515 ABC-ATPase subunit interface; other site 242231000516 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 242231000517 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 242231000518 dimer interface [polypeptide binding]; other site 242231000519 conserved gate region; other site 242231000520 putative PBP binding loops; other site 242231000521 ABC-ATPase subunit interface; other site 242231000522 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 242231000523 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 242231000524 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 242231000525 transcription termination factor Rho; Provisional; Region: rho; PRK09376 242231000526 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 242231000527 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 242231000528 RNA binding site [nucleotide binding]; other site 242231000529 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 242231000530 multimer interface [polypeptide binding]; other site 242231000531 Walker A motif; other site 242231000532 ATP binding site [chemical binding]; other site 242231000533 Walker B motif; other site 242231000534 phosphoenolpyruvate synthase; Validated; Region: PRK06464 242231000535 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 242231000536 PEP-utilizing enzyme, mobile domain; Region: PEP-utilizers; pfam00391 242231000537 PEP-utilizing enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 242231000538 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 242231000539 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1806 242231000540 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 242231000541 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 242231000542 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 242231000543 motif II; other site 242231000544 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 242231000545 dinuclear metal binding motif [ion binding]; other site 242231000546 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 242231000547 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 242231000548 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 242231000549 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 242231000550 active site 242231000551 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 242231000552 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 242231000553 trimer interface [polypeptide binding]; other site 242231000554 putative metal binding site [ion binding]; other site 242231000555 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 242231000556 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 242231000557 G1 box; other site 242231000558 putative GEF interaction site [polypeptide binding]; other site 242231000559 GTP/Mg2+ binding site [chemical binding]; other site 242231000560 Switch I region; other site 242231000561 G2 box; other site 242231000562 G3 box; other site 242231000563 Switch II region; other site 242231000564 G4 box; other site 242231000565 G5 box; other site 242231000566 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 242231000567 Elongation Factor G, domain II; Region: EFG_II; pfam14492 242231000568 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 242231000569 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 242231000570 substrate binding site [chemical binding]; other site 242231000571 glutamase interaction surface [polypeptide binding]; other site 242231000572 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 242231000573 catalytic residues [active] 242231000574 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 242231000575 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13142 242231000576 putative active site [active] 242231000577 oxyanion strand; other site 242231000578 catalytic triad [active] 242231000579 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 242231000580 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 242231000581 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 242231000582 Walker A/P-loop; other site 242231000583 ATP binding site [chemical binding]; other site 242231000584 Q-loop/lid; other site 242231000585 ABC transporter signature motif; other site 242231000586 Walker B; other site 242231000587 D-loop; other site 242231000588 H-loop/switch region; other site 242231000589 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 242231000590 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 242231000591 dimer interface [polypeptide binding]; other site 242231000592 conserved gate region; other site 242231000593 putative PBP binding loops; other site 242231000594 ABC-ATPase subunit interface; other site 242231000595 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 242231000596 dimer interface [polypeptide binding]; other site 242231000597 conserved gate region; other site 242231000598 putative PBP binding loops; other site 242231000599 ABC-ATPase subunit interface; other site 242231000600 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 242231000601 argininosuccinate lyase; Provisional; Region: PRK00855 242231000602 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 242231000603 active sites [active] 242231000604 tetramer interface [polypeptide binding]; other site 242231000605 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 242231000606 active site 242231000607 tetramer interface; other site 242231000608 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 242231000609 active site 242231000610 dimerization interface [polypeptide binding]; other site 242231000611 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 242231000612 dimer interface [polypeptide binding]; other site 242231000613 substrate binding site [chemical binding]; other site 242231000614 metal binding sites [ion binding]; metal-binding site 242231000615 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_7; cd04664 242231000616 nudix motif; other site 242231000617 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 242231000618 Bacterial EndoU nuclease; Region: EndoU_bacteria; pfam14436 242231000619 DNase/tRNase domain of colicin-like bacteriocin; Region: Colicin-DNase; pfam12639 242231000620 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 242231000621 Cation transport protein; Region: TrkH; cl17365 242231000622 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 242231000623 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 242231000624 active site 242231000625 metal binding site [ion binding]; metal-binding site 242231000626 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 242231000627 homotrimer interaction site [polypeptide binding]; other site 242231000628 putative active site [active] 242231000629 Opacity family porin protein; Region: Opacity; pfam02462 242231000630 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 242231000631 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 242231000632 FeS/SAM binding site; other site 242231000633 HemN C-terminal domain; Region: HemN_C; pfam06969 242231000634 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 242231000635 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 242231000636 nucleotide binding pocket [chemical binding]; other site 242231000637 K-X-D-G motif; other site 242231000638 catalytic site [active] 242231000639 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 242231000640 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 242231000641 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 242231000642 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 242231000643 Dimer interface [polypeptide binding]; other site 242231000644 BRCT sequence motif; other site 242231000645 Cell division protein [Cell division and chromosome partitioning]; Region: FtsN; COG3087 242231000646 ZipA, C-terminal domain (FtsZ-binding); Region: ZipA_C; smart00771 242231000647 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 242231000648 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 242231000649 amidase catalytic site [active] 242231000650 Zn binding residues [ion binding]; other site 242231000651 substrate binding site [chemical binding]; other site 242231000652 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 242231000653 dimerization interface [polypeptide binding]; other site 242231000654 thymidylate kinase; Validated; Region: tmk; PRK00698 242231000655 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 242231000656 TMP-binding site; other site 242231000657 ATP-binding site [chemical binding]; other site 242231000658 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 242231000659 Malic enzyme, N-terminal domain; Region: malic; pfam00390 242231000660 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 242231000661 putative NAD(P) binding site [chemical binding]; other site 242231000662 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 242231000663 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3184 242231000664 Uncharacterized conserved protein [Function unknown]; Region: COG2835 242231000665 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 242231000666 Ligand binding site; other site 242231000667 oligomer interface; other site 242231000668 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 242231000669 substrate binding site [chemical binding]; other site 242231000670 active site 242231000671 catalytic residues [active] 242231000672 heterodimer interface [polypeptide binding]; other site 242231000673 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 242231000674 CNP1-like family; Region: CNP1; pfam08750 242231000675 DDE superfamily endonuclease; Region: DDE_3; pfam13358 242231000676 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 242231000677 active site 242231000678 substrate binding pocket [chemical binding]; other site 242231000679 dimer interface [polypeptide binding]; other site 242231000680 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 242231000681 putative RNA binding site [nucleotide binding]; other site 242231000682 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 242231000683 homopentamer interface [polypeptide binding]; other site 242231000684 active site 242231000685 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4859 242231000686 ribonuclease III; Reviewed; Region: rnc; PRK00102 242231000687 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 242231000688 dimerization interface [polypeptide binding]; other site 242231000689 active site 242231000690 metal binding site [ion binding]; metal-binding site 242231000691 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 242231000692 dsRNA binding site [nucleotide binding]; other site 242231000693 GTPase Era; Reviewed; Region: era; PRK00089 242231000694 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 242231000695 G1 box; other site 242231000696 GTP/Mg2+ binding site [chemical binding]; other site 242231000697 Switch I region; other site 242231000698 G2 box; other site 242231000699 Switch II region; other site 242231000700 G3 box; other site 242231000701 G4 box; other site 242231000702 G5 box; other site 242231000703 KH domain; Region: KH_2; pfam07650 242231000704 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 242231000705 active site 242231000706 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 242231000707 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 242231000708 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 242231000709 amidophosphoribosyltransferase; Provisional; Region: PRK09246 242231000710 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 242231000711 active site 242231000712 tetramer interface [polypeptide binding]; other site 242231000713 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 242231000714 active site 242231000715 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 242231000716 cell division protein FtsN; Region: ftsN; TIGR02223 242231000717 Sporulation related domain; Region: SPOR; pfam05036 242231000718 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 242231000719 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 242231000720 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 242231000721 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 242231000722 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 242231000723 Walker A/P-loop; other site 242231000724 ATP binding site [chemical binding]; other site 242231000725 Q-loop/lid; other site 242231000726 ABC transporter signature motif; other site 242231000727 Walker B; other site 242231000728 D-loop; other site 242231000729 H-loop/switch region; other site 242231000730 Region found in RelA / SpoT proteins; Region: RelA_SpoT; smart00954 242231000731 metal binding triad [ion binding]; metal-binding site 242231000732 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 242231000733 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 242231000734 pyridoxal 5'-phosphate binding site [chemical binding]; other site 242231000735 catalytic residue [active] 242231000736 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 242231000737 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases; Region: PL1_Passenger_AT; cd01343 242231000738 MAP7 (E-MAP-115) family; Region: MAP7; pfam05672 242231000739 Bacterial type III secretion protein (HrpB7); Region: HrpB7; cl09720 242231000740 Protein of unknown function, DUF601; Region: DUF601; pfam04642 242231000741 Autotransporter beta-domain; Region: Autotransporter; pfam03797 242231000742 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 242231000743 Competence protein; Region: Competence; pfam03772 242231000744 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 242231000745 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 242231000746 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 242231000747 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 242231000748 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 242231000749 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 242231000750 RNA binding surface [nucleotide binding]; other site 242231000751 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 242231000752 active site 242231000753 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 242231000754 Rare lipoprotein B [Cell envelope biogenesis, outer membrane]; Region: RlpB; COG2980 242231000755 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 242231000756 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; cl19912 242231000757 Predicted membrane protein/domain [Function unknown]; Region: COG1714 242231000758 hypothetical protein; Provisional; Region: PRK11820 242231000759 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 242231000760 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 242231000761 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 242231000762 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 242231000763 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 242231000764 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 242231000765 DNA binding residues [nucleotide binding] 242231000766 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 242231000767 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 242231000768 putative active site [active] 242231000769 catalytic triad [active] 242231000770 putative dimer interface [polypeptide binding]; other site 242231000771 Protein of unknown function (DUF808); Region: DUF808; cl01002 242231000772 potassium/proton antiporter; Reviewed; Region: PRK05326 242231000773 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 242231000774 Transporter associated domain; Region: CorC_HlyC; smart01091 242231000775 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 242231000776 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 242231000777 Protoheme ferro-lyase (ferrochelatase) [Coenzyme metabolism]; Region: HemH; COG0276 242231000778 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 242231000779 C-terminal domain interface [polypeptide binding]; other site 242231000780 active site 242231000781 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 242231000782 active site 242231000783 N-terminal domain interface [polypeptide binding]; other site 242231000784 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 242231000785 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 242231000786 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 242231000787 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 242231000788 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 242231000789 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 242231000790 active site 242231000791 dimer interface [polypeptide binding]; other site 242231000792 motif 1; other site 242231000793 motif 2; other site 242231000794 motif 3; other site 242231000795 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 242231000796 anticodon binding site; other site 242231000797 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 242231000798 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 242231000799 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 242231000800 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 242231000801 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 242231000802 23S rRNA binding site [nucleotide binding]; other site 242231000803 L21 binding site [polypeptide binding]; other site 242231000804 L13 binding site [polypeptide binding]; other site 242231000805 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 242231000806 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 242231000807 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 242231000808 dimer interface [polypeptide binding]; other site 242231000809 motif 1; other site 242231000810 active site 242231000811 motif 2; other site 242231000812 motif 3; other site 242231000813 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 242231000814 additional DNA contacts [nucleotide binding]; other site 242231000815 mismatch recognition site; other site 242231000816 active site 242231000817 zinc binding site [ion binding]; other site 242231000818 DNA intercalation site [nucleotide binding]; other site 242231000819 HNH endonuclease; Region: HNH_2; pfam13391 242231000820 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 242231000821 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 242231000822 putative tRNA-binding site [nucleotide binding]; other site 242231000823 B3/4 domain; Region: B3_4; pfam03483 242231000824 tRNA synthetase B5 domain; Region: B5; smart00874 242231000825 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 242231000826 dimer interface [polypeptide binding]; other site 242231000827 motif 1; other site 242231000828 motif 3; other site 242231000829 motif 2; other site 242231000830 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 242231000831 Alpha subunit of integration host factor (IHFA); Region: IHF_A; cd13835 242231000832 DNA binding site [nucleotide binding] 242231000833 dimer interface [polypeptide binding]; other site 242231000834 Protein affecting phage T7 exclusion by the F plasmid [General function prediction only]; Region: FxsA; COG3030 242231000835 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 242231000836 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 242231000837 inhibitor-cofactor binding pocket; inhibition site 242231000838 pyridoxal 5'-phosphate binding site [chemical binding]; other site 242231000839 catalytic residue [active] 242231000840 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 242231000841 AAA domain; Region: AAA_26; pfam13500 242231000842 Chorismate lyase; Region: Chor_lyase; cl01230 242231000843 Immunity protein 30; Region: Imm30; pfam15594 242231000844 4-Hydroxybenzoate polyprenyltransferase; Region: PT_UbiA_COQ2; cd13959 242231000845 putative active site [active] 242231000846 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 242231000847 active site 242231000848 phosphorylation site [posttranslational modification] 242231000849 HPr kinase/phosphorylase; Provisional; Region: PRK05428 242231000850 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 242231000851 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 242231000852 Hpr binding site; other site 242231000853 active site 242231000854 homohexamer subunit interaction site [polypeptide binding]; other site 242231000855 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 242231000856 AAA domain; Region: AAA_33; pfam13671 242231000857 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 242231000858 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 242231000859 GTP/Mg2+ binding site [chemical binding]; other site 242231000860 G4 box; other site 242231000861 G5 box; other site 242231000862 G1 box; other site 242231000863 Switch I region; other site 242231000864 G2 box; other site 242231000865 G3 box; other site 242231000866 Switch II region; other site 242231000867 Chromosome segregation and condensation protein B [DNA replication, recombination and repair]; Region: scpB; COG1386 242231000868 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 242231000869 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 242231000870 Walker A/P-loop; other site 242231000871 ATP binding site [chemical binding]; other site 242231000872 Q-loop/lid; other site 242231000873 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 242231000874 ABC transporter signature motif; other site 242231000875 Walker B; other site 242231000876 D-loop; other site 242231000877 H-loop/switch region; other site 242231000878 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 242231000879 tRNA U-34 5-methylaminomethyl-2-thiouridine biosynthesis protein MnmC, C-terminal domain; Region: MnmC_Cterm; TIGR03197 242231000880 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 242231000881 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 242231000882 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 242231000883 S-adenosylmethionine binding site [chemical binding]; other site 242231000884 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 242231000885 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; cl17869 242231000886 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 242231000887 catalytic center binding site [active] 242231000888 ATP binding site [chemical binding]; other site 242231000889 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3094 242231000890 bacterial Hfq-like; Region: Hfq; cd01716 242231000891 hexamer interface [polypeptide binding]; other site 242231000892 Sm1 motif; other site 242231000893 RNA binding site [nucleotide binding]; other site 242231000894 Sm2 motif; other site 242231000895 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl19191 242231000896 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 242231000897 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 242231000898 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 242231000899 catalytic triad [active] 242231000900 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 242231000901 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 242231000902 active site 242231000903 Int/Topo IB signature motif; other site 242231000904 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 242231000905 dTDP-4-dehydrorhamnose reductase; Region: rmlD; TIGR01214 242231000906 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 242231000907 NADP binding site [chemical binding]; other site 242231000908 active site 242231000909 putative substrate binding site [chemical binding]; other site 242231000910 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 242231000911 ATP binding site [chemical binding]; other site 242231000912 active site 242231000913 substrate binding site [chemical binding]; other site 242231000914 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 242231000915 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 242231000916 RNase E interface [polypeptide binding]; other site 242231000917 trimer interface [polypeptide binding]; other site 242231000918 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 242231000919 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 242231000920 RNase E interface [polypeptide binding]; other site 242231000921 trimer interface [polypeptide binding]; other site 242231000922 active site 242231000923 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 242231000924 putative nucleic acid binding region [nucleotide binding]; other site 242231000925 G-X-X-G motif; other site 242231000926 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 242231000927 RNA binding site [nucleotide binding]; other site 242231000928 domain interface; other site 242231000929 Uncharacterized conserved protein [Function unknown]; Region: COG2836 242231000930 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 242231000931 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 242231000932 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 242231000933 cysteine synthase; Region: PLN02565 242231000934 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 242231000935 dimer interface [polypeptide binding]; other site 242231000936 pyridoxal 5'-phosphate binding site [chemical binding]; other site 242231000937 catalytic residue [active] 242231000938 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 242231000939 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 242231000940 Catalytic site [active] 242231000941 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 242231000942 GTP-binding protein LepA; Provisional; Region: PRK05433 242231000943 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 242231000944 G1 box; other site 242231000945 putative GEF interaction site [polypeptide binding]; other site 242231000946 GTP/Mg2+ binding site [chemical binding]; other site 242231000947 Switch I region; other site 242231000948 G2 box; other site 242231000949 G3 box; other site 242231000950 Switch II region; other site 242231000951 G4 box; other site 242231000952 G5 box; other site 242231000953 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 242231000954 Elongation Factor G, domain II; Region: EFG_II; pfam14492 242231000955 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 242231000956 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 242231000957 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 242231000958 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 242231000959 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 242231000960 Walker A motif; other site 242231000961 ATP binding site [chemical binding]; other site 242231000962 Walker B motif; other site 242231000963 DNA polymerase III subunit delta'; Validated; Region: PRK08699 242231000964 DNA polymerase III subunit delta'; Validated; Region: PRK08485 242231000965 Tfp pilus assembly protein PilZ [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilZ; COG3215 242231000966 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 242231000967 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 242231000968 active site 242231000969 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 242231000970 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 242231000971 putative GSH binding site [chemical binding]; other site 242231000972 catalytic residues [active] 242231000973 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 242231000974 active site 242231000975 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4390 242231000976 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 242231000977 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 242231000978 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 242231000979 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 242231000980 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 242231000981 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 242231000982 active site 242231000983 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemX; COG2959 242231000984 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 242231000985 HemY protein N-terminus; Region: HemY_N; pfam07219 242231000986 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 242231000987 substrate binding site [chemical binding]; other site 242231000988 active site 242231000989 DEAD-like helicases superfamily; Region: DEXDc; smart00487 242231000990 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 242231000991 ATP binding site [chemical binding]; other site 242231000992 putative Mg++ binding site [ion binding]; other site 242231000993 Z1 domain; Region: Z1; pfam10593 242231000994 Putative catalytic domain of type II restriction enzyme NgoFVII and similar proteins; Region: PLDc_RE_NgoFVII; cd09177 242231000995 PLD-like domain; Region: PLDc_2; pfam13091 242231000996 putative homodimer interface [polypeptide binding]; other site 242231000997 putative active site [active] 242231000998 catalytic site [active] 242231000999 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 242231001000 cofactor binding site; other site 242231001001 DNA binding site [nucleotide binding] 242231001002 substrate interaction site [chemical binding]; other site 242231001003 DNA repair protein RadA; Provisional; Region: PRK11823 242231001004 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 242231001005 Walker A motif/ATP binding site; other site 242231001006 ATP binding site [chemical binding]; other site 242231001007 Walker B motif; other site 242231001008 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 242231001009 Uncharacterized conserved protein [Function unknown]; Region: COG3439 242231001010 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 242231001011 active site residue [active] 242231001012 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 242231001013 Part of AAA domain; Region: AAA_19; pfam13245 242231001014 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 242231001015 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 242231001016 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 242231001017 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 242231001018 substrate binding pocket [chemical binding]; other site 242231001019 membrane-bound complex binding site; other site 242231001020 hinge residues; other site 242231001021 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 242231001022 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 242231001023 dimer interface [polypeptide binding]; other site 242231001024 conserved gate region; other site 242231001025 putative PBP binding loops; other site 242231001026 ABC-ATPase subunit interface; other site 242231001027 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 242231001028 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 242231001029 Walker A/P-loop; other site 242231001030 ATP binding site [chemical binding]; other site 242231001031 Q-loop/lid; other site 242231001032 ABC transporter signature motif; other site 242231001033 Walker B; other site 242231001034 D-loop; other site 242231001035 H-loop/switch region; other site 242231001036 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 242231001037 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 242231001038 active site 242231001039 substrate binding site [chemical binding]; other site 242231001040 metal binding site [ion binding]; metal-binding site 242231001041 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 242231001042 active site 242231001043 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 242231001044 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 242231001045 transmembrane helices; other site 242231001046 VanZ like family; Region: VanZ; cl01971 242231001047 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 242231001048 putative active site [active] 242231001049 catalytic residue [active] 242231001050 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2914 242231001051 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 242231001052 putative coenzyme Q binding site [chemical binding]; other site 242231001053 FtsH Extracellular; Region: FtsH_ext; pfam06480 242231001054 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 242231001055 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 242231001056 Walker A motif; other site 242231001057 ATP binding site [chemical binding]; other site 242231001058 Walker B motif; other site 242231001059 arginine finger; other site 242231001060 Peptidase family M41; Region: Peptidase_M41; pfam01434 242231001061 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 242231001062 S-adenosylmethionine binding site [chemical binding]; other site 242231001063 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 242231001064 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 242231001065 dimer interface [polypeptide binding]; other site 242231001066 active site 242231001067 aspartate-rich active site metal binding site; other site 242231001068 allosteric magnesium binding site [ion binding]; other site 242231001069 Schiff base residues; other site 242231001070 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 242231001071 homodimer interface [polypeptide binding]; other site 242231001072 substrate-cofactor binding pocket; other site 242231001073 pyridoxal 5'-phosphate binding site [chemical binding]; other site 242231001074 catalytic residue [active] 242231001075 putative GTP cyclohydrolase; Provisional; Region: PRK13674 242231001076 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 242231001077 dimer interface [polypeptide binding]; other site 242231001078 FMN binding site [chemical binding]; other site 242231001079 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 242231001080 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 242231001081 RNA binding surface [nucleotide binding]; other site 242231001082 Pseudouridine synthase, a subgroup of the RsuA family; Region: PSSA_1; cd02555 242231001083 active site 242231001084 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK04539 242231001085 SCP-2 sterol transfer family; Region: SCP2; cl01225 242231001086 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 242231001087 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 242231001088 putative NAD(P) binding site [chemical binding]; other site 242231001089 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 242231001090 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 242231001091 Bacterial transcriptional repressor; Region: TetR; pfam13972 242231001092 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 242231001093 FAD binding domain; Region: FAD_binding_4; pfam01565 242231001094 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 242231001095 multidrug efflux protein; Reviewed; Region: PRK01766 242231001096 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 242231001097 cation binding site [ion binding]; other site 242231001098 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12292 242231001099 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 242231001100 motif 1; other site 242231001101 dimer interface [polypeptide binding]; other site 242231001102 active site 242231001103 motif 2; other site 242231001104 motif 3; other site 242231001105 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 242231001106 GDP-binding site [chemical binding]; other site 242231001107 ACT binding site; other site 242231001108 IMP binding site; other site 242231001109 heat shock protein HtpX; Provisional; Region: PRK05457 242231001110 adenylate kinase; Reviewed; Region: adk; PRK00279 242231001111 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 242231001112 AMP-binding site [chemical binding]; other site 242231001113 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 242231001114 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 242231001115 active site 242231001116 dimer interface [polypeptide binding]; other site 242231001117 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 242231001118 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 242231001119 putative ribose interaction site [chemical binding]; other site 242231001120 putative ADP binding site [chemical binding]; other site 242231001121 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 242231001122 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 242231001123 NADP binding site [chemical binding]; other site 242231001124 homopentamer interface [polypeptide binding]; other site 242231001125 substrate binding site [chemical binding]; other site 242231001126 active site 242231001127 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 242231001128 HsdM N-terminal domain; Region: HsdM_N; pfam12161 242231001129 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 242231001130 S-adenosylmethionine binding site [chemical binding]; other site 242231001131 DNA-damage-inducible protein D; Provisional; Region: dinD; PRK11525 242231001132 BRO family, N-terminal domain; Region: Bro-N; pfam02498 242231001133 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 242231001134 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 242231001135 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 242231001136 ATP binding site [chemical binding]; other site 242231001137 putative Mg++ binding site [ion binding]; other site 242231001138 Type I restriction and modification enzyme - subunit R C terminal; Region: EcoR124_C; pfam12008 242231001139 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 242231001140 Clp amino terminal domain; Region: Clp_N; pfam02861 242231001141 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 242231001142 Walker A motif; other site 242231001143 ATP binding site [chemical binding]; other site 242231001144 Walker B motif; other site 242231001145 arginine finger; other site 242231001146 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 242231001147 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 242231001148 Walker A motif; other site 242231001149 ATP binding site [chemical binding]; other site 242231001150 Walker B motif; other site 242231001151 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 242231001152 Uncharacterized conserved protein [Function unknown]; Region: COG2127 242231001153 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 242231001154 DNA-binding site [nucleotide binding]; DNA binding site 242231001155 RNA-binding motif; other site 242231001156 Putative modulator of DNA gyrase; Region: PmbA_TldD; cl19356 242231001157 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3028 242231001158 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 242231001159 DHH family; Region: DHH; pfam01368 242231001160 DHHA1 domain; Region: DHHA1; pfam02272 242231001161 poly(A) polymerase; Region: pcnB; TIGR01942 242231001162 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 242231001163 active site 242231001164 NTP binding site [chemical binding]; other site 242231001165 metal binding triad [ion binding]; metal-binding site 242231001166 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 242231001167 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 242231001168 Protein of unknown function (DUF3247); Region: DUF3247; pfam11607 242231001169 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 242231001170 PhoH-like protein; Region: PhoH; pfam02562 242231001171 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 242231001172 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 242231001173 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 242231001174 Predicted periplasmic/secreted protein [Function unknown]; Region: COG3471 242231001175 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 242231001176 trimer interface [polypeptide binding]; other site 242231001177 active site 242231001178 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 242231001179 Putative exonuclease, RdgC; Region: RdgC; cl01122 242231001180 GTP-binding protein Der; Reviewed; Region: PRK00093 242231001181 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 242231001182 G1 box; other site 242231001183 GTP/Mg2+ binding site [chemical binding]; other site 242231001184 Switch I region; other site 242231001185 G2 box; other site 242231001186 Switch II region; other site 242231001187 G3 box; other site 242231001188 G4 box; other site 242231001189 G5 box; other site 242231001190 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 242231001191 G1 box; other site 242231001192 GTP/Mg2+ binding site [chemical binding]; other site 242231001193 Switch I region; other site 242231001194 G2 box; other site 242231001195 G3 box; other site 242231001196 Switch II region; other site 242231001197 G4 box; other site 242231001198 G5 box; other site 242231001199 KH-domain-like of EngA bacterial GTPase enzymes, C-terminal; Region: KH_dom-like; pfam14714 242231001200 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 242231001201 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 242231001202 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 242231001203 dimer interface [polypeptide binding]; other site 242231001204 motif 1; other site 242231001205 active site 242231001206 motif 2; other site 242231001207 motif 3; other site 242231001208 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 242231001209 anticodon binding site; other site 242231001210 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39G; cd02423 242231001211 putative active site [active] 242231001212 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 242231001213 Pseudouridine synthase, a subgroup of the RluA family; Region: PSRA_1; cd02558 242231001214 probable active site [active] 242231001215 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 242231001216 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 242231001217 spermidine synthase; Provisional; Region: PRK04457 242231001218 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 242231001219 oligomerization interface [polypeptide binding]; other site 242231001220 active site 242231001221 metal binding site [ion binding]; metal-binding site 242231001222 Pantoate-beta-alanine ligase; Region: PanC; cd00560 242231001223 active site 242231001224 ATP-binding site [chemical binding]; other site 242231001225 pantoate-binding site; other site 242231001226 HXXH motif; other site 242231001227 Outer membrane lipoprotein LolB; Region: LolB; cl19307 242231001228 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 242231001229 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 242231001230 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 242231001231 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 242231001232 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 242231001233 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 242231001234 active site 242231001235 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 242231001236 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 242231001237 5S rRNA interface [nucleotide binding]; other site 242231001238 CTC domain interface [polypeptide binding]; other site 242231001239 L16 interface [polypeptide binding]; other site 242231001240 Ribosomal protein TL5, C-terminal domain; Region: Ribosomal_TL5_C; pfam14693 242231001241 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 242231001242 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl19191 242231001243 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 242231001244 threonine dehydratase; Reviewed; Region: PRK09224 242231001245 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 242231001246 tetramer interface [polypeptide binding]; other site 242231001247 pyridoxal 5'-phosphate binding site [chemical binding]; other site 242231001248 catalytic residue [active] 242231001249 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 242231001250 putative Ile/Val binding site [chemical binding]; other site 242231001251 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 242231001252 putative Ile/Val binding site [chemical binding]; other site 242231001253 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 242231001254 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 242231001255 Walker A/P-loop; other site 242231001256 ATP binding site [chemical binding]; other site 242231001257 Q-loop/lid; other site 242231001258 ABC transporter signature motif; other site 242231001259 Walker B; other site 242231001260 D-loop; other site 242231001261 H-loop/switch region; other site 242231001262 TOBE-like domain; Region: TOBE_3; pfam12857 242231001263 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 242231001264 dimer interface [polypeptide binding]; other site 242231001265 conserved gate region; other site 242231001266 putative PBP binding loops; other site 242231001267 ABC-ATPase subunit interface; other site 242231001268 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1755 242231001269 replicative DNA helicase; Provisional; Region: PRK05748 242231001270 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 242231001271 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 242231001272 Walker A motif; other site 242231001273 ATP binding site [chemical binding]; other site 242231001274 Walker B motif; other site 242231001275 DNA binding loops [nucleotide binding] 242231001276 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 242231001277 Type II transport protein GspH; Region: GspH; pfam12019 242231001278 Tfp pilus assembly protein PilV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilV; COG4967 242231001279 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 242231001280 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 242231001281 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 242231001282 PilX N-terminal; Region: PilX_N; pfam14341 242231001283 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 242231001284 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 242231001285 Minor type IV pilin, PilX; Region: Pilin_PilX; pfam11530 242231001286 Predicted membrane protein [Function unknown]; Region: COG4541 242231001287 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 242231001288 trimer interface [polypeptide binding]; other site 242231001289 active site 242231001290 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 242231001291 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 242231001292 pyridoxal 5'-phosphate binding site [chemical binding]; other site 242231001293 homodimer interface [polypeptide binding]; other site 242231001294 catalytic residue [active] 242231001295 hypothetical protein; Validated; Region: PRK02101 242231001296 integrase; Provisional; Region: PRK09692 242231001297 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 242231001298 active site 242231001299 Int/Topo IB signature motif; other site 242231001300 Protein of unknown function (DUF2786); Region: DUF2786; pfam10979 242231001301 Siphovirus Gp157; Region: Sipho_Gp157; pfam05565 242231001302 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 242231001303 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 242231001304 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 242231001305 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 242231001306 non-specific DNA binding site [nucleotide binding]; other site 242231001307 salt bridge; other site 242231001308 sequence-specific DNA binding site [nucleotide binding]; other site 242231001309 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 242231001310 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 242231001311 non-specific DNA binding site [nucleotide binding]; other site 242231001312 salt bridge; other site 242231001313 sequence-specific DNA binding site [nucleotide binding]; other site 242231001314 Predicted transcriptional regulator [Transcription]; Region: COG2932 242231001315 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 242231001316 Catalytic site [active] 242231001317 Helix-turn-helix domain; Region: HTH_39; pfam14090 242231001318 phage replicative helicase, DnaB family, HK022 subfamily; Region: phage_DnaB; TIGR03600 242231001319 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 242231001320 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 242231001321 Walker A motif; other site 242231001322 ATP binding site [chemical binding]; other site 242231001323 Walker B motif; other site 242231001324 Protein of unknwon function (DUF3310); Region: DUF3310; pfam11753 242231001325 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 242231001326 Pleckstrin homology-like domain; Region: PH-like; cl17171 242231001327 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5410 242231001328 Terminase-like family; Region: Terminase_6; pfam03237 242231001329 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 242231001330 Phage portal protein; Region: Phage_portal; cl19194 242231001331 Uncharacterized protein, homolog of phage Mu protein gp30 [Function unknown]; Region: COG2369 242231001332 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 242231001333 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 242231001334 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 242231001335 Bacteriophage HK97-gp10, putative tail-component; Region: HK97-gp10_like; pfam04883 242231001336 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; pfam09343 242231001337 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 242231001338 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 242231001339 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 242231001340 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 242231001341 NlpC/P60 family; Region: NLPC_P60; cl17555 242231001342 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 242231001343 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 242231001344 non-specific DNA binding site [nucleotide binding]; other site 242231001345 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 242231001346 motif 1; other site 242231001347 sequence-specific DNA binding site [nucleotide binding]; other site 242231001348 salt bridge; other site 242231001349 Putative phage tail protein; Region: Phage-tail_3; pfam13550 242231001350 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 242231001351 Fibronectin type III protein; Region: DUF3672; pfam12421 242231001352 PemK-like protein; Region: PemK; cl00995 242231001353 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 242231001354 TIGR02594 family protein; Region: TIGR02594 242231001355 Phage-related minor tail protein [Function unknown]; Region: COG5281 242231001356 tape measure domain; Region: tape_meas_nterm; TIGR02675 242231001357 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 242231001358 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 242231001359 active site 242231001360 DNA binding site [nucleotide binding] 242231001361 Int/Topo IB signature motif; other site 242231001362 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 242231001363 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 242231001364 dimerization interface [polypeptide binding]; other site 242231001365 putative ATP binding site [chemical binding]; other site 242231001366 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 242231001367 Choline-glycine betaine transporter [Cell envelope biogenesis, outer membrane]; Region: BetT; COG1292 242231001368 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 242231001369 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 242231001370 acyl-activating enzyme (AAE) consensus motif; other site 242231001371 putative AMP binding site [chemical binding]; other site 242231001372 putative active site [active] 242231001373 putative CoA binding site [chemical binding]; other site 242231001374 SGNH_peri1; putative periplasmic member of the SGNH-family of hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known...; Region: SGNH_hydrolase_peri1; cd01825 242231001375 active site 242231001376 oxyanion hole [active] 242231001377 catalytic triad [active] 242231001378 SGNH_peri2; putative periplasmic member of the SGNH-family of hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known...; Region: SGNH_hydrolase_peri2; cd01829 242231001379 active site 242231001380 catalytic triad [active] 242231001381 oxyanion hole [active] 242231001382 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 242231001383 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 242231001384 metal-binding site [ion binding] 242231001385 Low molecular weight phosphatase family; Region: LMWPc; cd00115 242231001386 active site 242231001387 Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]; Region: Fur; COG0735 242231001388 metal binding site 2 [ion binding]; metal-binding site 242231001389 putative DNA binding helix; other site 242231001390 metal binding site 1 [ion binding]; metal-binding site 242231001391 dimer interface [polypeptide binding]; other site 242231001392 structural Zn2+ binding site [ion binding]; other site 242231001393 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 242231001394 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 242231001395 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 242231001396 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 242231001397 substrate binding site [chemical binding]; other site 242231001398 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 242231001399 DNA methylase; Region: N6_N4_Mtase; pfam01555 242231001400 type III restriction-modification system StyLTI enzyme res; Provisional; Region: PRK15483 242231001401 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 242231001402 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 242231001403 Ligand Binding Site [chemical binding]; other site 242231001404 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 242231001405 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 242231001406 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 242231001407 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 242231001408 homotrimer interaction site [polypeptide binding]; other site 242231001409 putative active site [active] 242231001410 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 242231001411 putative deacylase active site [active] 242231001412 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 242231001413 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 242231001414 HSP70 interaction site [polypeptide binding]; other site 242231001415 Predicted membrane protein [Function unknown]; Region: COG3671 242231001416 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 242231001417 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 242231001418 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 242231001419 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 242231001420 TPR repeat; Region: TPR_11; pfam13414 242231001421 binding surface 242231001422 TPR motif; other site 242231001423 Protein of unknown function (DUF560); Region: DUF560; pfam04575 242231001424 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 242231001425 Aspartase; Region: Aspartase; cd01357 242231001426 active sites [active] 242231001427 tetramer interface [polypeptide binding]; other site 242231001428 Uncharacterized conserved protein [Function unknown]; Region: COG2353 242231001429 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 242231001430 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 242231001431 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 242231001432 E3 interaction surface; other site 242231001433 lipoyl attachment site [posttranslational modification]; other site 242231001434 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 242231001435 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 242231001436 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 242231001437 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 242231001438 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 242231001439 E3 interaction surface; other site 242231001440 lipoyl attachment site [posttranslational modification]; other site 242231001441 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 242231001442 E3 interaction surface; other site 242231001443 lipoyl attachment site [posttranslational modification]; other site 242231001444 e3 binding domain; Region: E3_binding; pfam02817 242231001445 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 242231001446 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 242231001447 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 242231001448 dimer interface [polypeptide binding]; other site 242231001449 TPP-binding site [chemical binding]; other site 242231001450 prolyl-tRNA synthetase; Provisional; Region: PRK09194 242231001451 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 242231001452 dimer interface [polypeptide binding]; other site 242231001453 motif 1; other site 242231001454 active site 242231001455 motif 2; other site 242231001456 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 242231001457 putative deacylase active site [active] 242231001458 motif 3; other site 242231001459 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 242231001460 anticodon binding site; other site 242231001461 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 242231001462 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 242231001463 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 242231001464 Putative transcriptional regulator [Transcription]; Region: COG1678 242231001465 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 242231001466 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 242231001467 Peptidase family M23; Region: Peptidase_M23; pfam01551 242231001468 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 242231001469 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 242231001470 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 242231001471 protein binding site [polypeptide binding]; other site 242231001472 Catalytic dyad [active] 242231001473 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 242231001474 excinuclease ABC subunit B; Provisional; Region: PRK05298 242231001475 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 242231001476 ATP-binding site [chemical binding]; other site 242231001477 ATP binding site [chemical binding]; other site 242231001478 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 242231001479 nucleotide binding region [chemical binding]; other site 242231001480 ATP-binding site [chemical binding]; other site 242231001481 Ultra-violet resistance protein B; Region: UvrB; pfam12344 242231001482 UvrB/uvrC motif; Region: UVR; pfam02151 242231001483 Carbonic anhydrase alpha, prokaryotic-like subfamily. Carbonic anhydrases (CAs) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism: a nucleophilic attack of a zinc-bound hydroxide ion on carbon...; Region: alpha_CA_prokaryotic_like; cd03124 242231001484 active site 242231001485 zinc binding site [ion binding]; other site 242231001486 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 242231001487 S-adenosylmethionine binding site [chemical binding]; other site 242231001488 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 242231001489 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 242231001490 GIY-YIG motif/motif A; other site 242231001491 active site 242231001492 catalytic site [active] 242231001493 putative DNA binding site [nucleotide binding]; other site 242231001494 metal binding site [ion binding]; metal-binding site 242231001495 UvrB/uvrC motif; Region: UVR; pfam02151 242231001496 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 242231001497 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 242231001498 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 242231001499 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 242231001500 metal-binding site [ion binding] 242231001501 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 242231001502 Soluble P-type ATPase [General function prediction only]; Region: COG4087 242231001503 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 242231001504 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 242231001505 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 242231001506 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 242231001507 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 242231001508 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 242231001509 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 242231001510 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 242231001511 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 242231001512 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 242231001513 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 242231001514 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 242231001515 Domain of unknown function (DUF4189); Region: DUF4189; pfam13827 242231001516 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 242231001517 Sulfate transporter family; Region: Sulfate_transp; cl19250 242231001518 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 242231001519 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 242231001520 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 242231001521 trigger factor; Provisional; Region: tig; PRK01490 242231001522 Bacterial trigger factor protein (TF); Region: Trigger_N; pfam05697 242231001523 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 242231001524 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 242231001525 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 242231001526 oligomer interface [polypeptide binding]; other site 242231001527 active site residues [active] 242231001528 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 242231001529 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate synthase; Region: ispG_gcpE; TIGR00612 242231001530 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 242231001531 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 242231001532 binding surface 242231001533 TPR motif; other site 242231001534 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 242231001535 TPR motif; other site 242231001536 binding surface 242231001537 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 242231001538 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 242231001539 FeS/SAM binding site; other site 242231001540 Nucleoside diphosphate kinase; Region: NDK; pfam00334 242231001541 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 242231001542 active site 242231001543 Predicted ATPase [General function prediction only]; Region: COG1485 242231001544 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819; cl19187 242231001545 Putative esterase; Region: Esterase; pfam00756 242231001546 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 242231001547 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 242231001548 DNA binding residues [nucleotide binding] 242231001549 putative dimer interface [polypeptide binding]; other site 242231001550 Beta subunit of integration host factor (IHFB); Region: IHF_B; cd13836 242231001551 dimer interface [polypeptide binding]; other site 242231001552 DNA binding site [nucleotide binding] 242231001553 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 242231001554 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 242231001555 RNA binding site [nucleotide binding]; other site 242231001556 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 242231001557 RNA binding site [nucleotide binding]; other site 242231001558 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 242231001559 RNA binding site [nucleotide binding]; other site 242231001560 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 242231001561 RNA binding site [nucleotide binding]; other site 242231001562 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 242231001563 RNA binding site [nucleotide binding]; other site 242231001564 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 242231001565 RNA binding site [nucleotide binding]; other site 242231001566 cytidylate kinase; Provisional; Region: cmk; PRK00023 242231001567 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 242231001568 CMP-binding site; other site 242231001569 The sites determining sugar specificity; other site 242231001570 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 242231001571 Na2 binding site [ion binding]; other site 242231001572 putative substrate binding site 1 [chemical binding]; other site 242231001573 Na binding site 1 [ion binding]; other site 242231001574 putative substrate binding site 2 [chemical binding]; other site 242231001575 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 242231001576 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 242231001577 active site 242231001578 uracil binding [chemical binding]; other site 242231001579 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 242231001580 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 242231001581 N-acetyl-D-glucosamine binding site [chemical binding]; other site 242231001582 catalytic residue [active] 242231001583 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 242231001584 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 242231001585 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 242231001586 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 242231001587 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 242231001588 DNA binding site [nucleotide binding] 242231001589 catalytic residue [active] 242231001590 H2TH interface [polypeptide binding]; other site 242231001591 putative catalytic residues [active] 242231001592 turnover-facilitating residue; other site 242231001593 intercalation triad [nucleotide binding]; other site 242231001594 8OG recognition residue [nucleotide binding]; other site 242231001595 putative reading head residues; other site 242231001596 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 242231001597 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 242231001598 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 242231001599 putative acyl-acceptor binding pocket; other site 242231001600 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 242231001601 ATP cone domain; Region: ATP-cone; pfam03477 242231001602 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 242231001603 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 242231001604 dimer interface [polypeptide binding]; other site 242231001605 putative radical transfer pathway; other site 242231001606 diiron center [ion binding]; other site 242231001607 tyrosyl radical; other site 242231001608 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 242231001609 catalytic loop [active] 242231001610 iron binding site [ion binding]; other site 242231001611 Septum formation initiator; Region: DivIC; cl17659 242231001612 enolase; Provisional; Region: eno; PRK00077 242231001613 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 242231001614 dimer interface [polypeptide binding]; other site 242231001615 metal binding site [ion binding]; metal-binding site 242231001616 substrate binding pocket [chemical binding]; other site 242231001617 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 242231001618 DAHP synthetase I family; Region: DAHP_synth_1; cl17225 242231001619 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 242231001620 tetramerization interface [polypeptide binding]; other site 242231001621 active site 242231001622 Protein of unknown function (DUF2004); Region: DUF2004; pfam09406 242231001623 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 242231001624 Bifunctional transglycosylase second domain; Region: UB2H; pfam14814 242231001625 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 242231001626 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 242231001627 ATP binding site [chemical binding]; other site 242231001628 putative Mg++ binding site [ion binding]; other site 242231001629 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 242231001630 nucleotide binding region [chemical binding]; other site 242231001631 ATP-binding site [chemical binding]; other site 242231001632 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 242231001633 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 242231001634 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; cl09932 242231001635 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 242231001636 active site 242231001637 Membrane-bound lytic murein transglycosylase B [Cell envelope biogenesis, outer membrane]; Region: MltB; COG2951 242231001638 Transglycosylase SLT domain; Region: SLT_2; cl19381 242231001639 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 242231001640 N-acetyl-D-glucosamine binding site [chemical binding]; other site 242231001641 catalytic residue [active] 242231001642 Site-specific recombinase [DNA replication, recombination, and repair]; Region: COG4389 242231001643 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 242231001644 DNA gyrase subunit A; Validated; Region: PRK05560 242231001645 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 242231001646 CAP-like domain; other site 242231001647 active site 242231001648 primary dimer interface [polypeptide binding]; other site 242231001649 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 242231001650 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 242231001651 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 242231001652 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 242231001653 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 242231001654 HSCB C-terminal oligomerization domain; Region: HSCB_C; pfam07743 242231001655 iron-sulfur cluster assembly protein IscA; Region: IscA; TIGR02011 242231001656 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 242231001657 trimerization site [polypeptide binding]; other site 242231001658 active site 242231001659 cysteine desulfurase; Provisional; Region: PRK14012 242231001660 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 242231001661 catalytic residue [active] 242231001662 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 242231001663 Rrf2 family protein; Region: rrf2_super; TIGR00738 242231001664 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 242231001665 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 242231001666 active site 242231001667 substrate binding site [chemical binding]; other site 242231001668 FMN binding site [chemical binding]; other site 242231001669 putative catalytic residues [active] 242231001670 DEAD-like helicases superfamily; Region: DEXDc; smart00487 242231001671 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 242231001672 ATP binding site [chemical binding]; other site 242231001673 putative Mg++ binding site [ion binding]; other site 242231001674 Type III restriction/modification enzyme methylation subunit; Region: TypeIII_RM_meth; pfam12564 242231001675 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 242231001676 Merozoite surface antigen 2c; Region: MSA-2c; pfam12238 242231001677 PT repeat; Region: PT; pfam04886 242231001678 DNA methylase; Region: N6_N4_Mtase; pfam01555 242231001679 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 242231001680 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 242231001681 RNA binding site [nucleotide binding]; other site 242231001682 active site 242231001683 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 242231001684 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 242231001685 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 242231001686 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 242231001687 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 242231001688 Walker A motif; other site 242231001689 ATP binding site [chemical binding]; other site 242231001690 Walker B motif; other site 242231001691 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 242231001692 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 242231001693 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 242231001694 inhibitor-cofactor binding pocket; inhibition site 242231001695 pyridoxal 5'-phosphate binding site [chemical binding]; other site 242231001696 catalytic residue [active] 242231001697 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 242231001698 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 242231001699 ATP binding site [chemical binding]; other site 242231001700 Mg++ binding site [ion binding]; other site 242231001701 motif III; other site 242231001702 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 242231001703 nucleotide binding region [chemical binding]; other site 242231001704 ATP-binding site [chemical binding]; other site 242231001705 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 242231001706 S-adenosylmethionine binding site [chemical binding]; other site 242231001707 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 242231001708 catalytic residues [active] 242231001709 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 242231001710 Fe binding site [ion binding]; other site 242231001711 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 242231001712 homodimer interface [polypeptide binding]; other site 242231001713 NAD binding pocket [chemical binding]; other site 242231001714 ATP binding pocket [chemical binding]; other site 242231001715 Mg binding site [ion binding]; other site 242231001716 active-site loop [active] 242231001717 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 242231001718 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 242231001719 generic binding surface II; other site 242231001720 generic binding surface I; other site 242231001721 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 242231001722 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 242231001723 putative substrate translocation pore; other site 242231001724 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 242231001725 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 242231001726 RNA binding surface [nucleotide binding]; other site 242231001727 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 242231001728 probable active site [active] 242231001729 Pyridoxamine-phosphate oxidase [Coenzyme metabolism]; Region: PdxH; COG0259 242231001730 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 242231001731 Pyridoxine 5'-phosphate oxidase C-terminal dimerization region; Region: PNPOx_C; pfam10590 242231001732 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 242231001733 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 242231001734 catalytic loop [active] 242231001735 iron binding site [ion binding]; other site 242231001736 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 242231001737 FAD binding pocket [chemical binding]; other site 242231001738 FAD binding motif [chemical binding]; other site 242231001739 phosphate binding motif [ion binding]; other site 242231001740 beta-alpha-beta structure motif; other site 242231001741 NAD binding pocket [chemical binding]; other site 242231001742 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 242231001743 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 242231001744 GatB domain; Region: GatB_Yqey; smart00845 242231001745 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VirK; COG2990 242231001746 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 242231001747 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 242231001748 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 242231001749 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 242231001750 NAD(P) binding site [chemical binding]; other site 242231001751 catalytic residues [active] 242231001752 16S rRNA methyltransferase B; Provisional; Region: PRK10901 242231001753 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 242231001754 S-adenosylmethionine binding site [chemical binding]; other site 242231001755 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3782 242231001756 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 242231001757 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 242231001758 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 242231001759 active site 242231001760 dimerization interface [polypeptide binding]; other site 242231001761 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 242231001762 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 242231001763 NgoBV restriction endonuclease; Region: RE_NgoBV; pfam09564 242231001764 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 242231001765 cofactor binding site; other site 242231001766 DNA binding site [nucleotide binding] 242231001767 substrate interaction site [chemical binding]; other site 242231001768 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 242231001769 substrate binding site [chemical binding]; other site 242231001770 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 242231001771 substrate binding site [chemical binding]; other site 242231001772 ligand binding site [chemical binding]; other site 242231001773 Glutamate-cysteine ligase; Region: GshA; cl19621 242231001774 hypothetical protein; Reviewed; Region: PRK00024 242231001775 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 242231001776 MPN+ (JAMM) motif; other site 242231001777 Zinc-binding site [ion binding]; other site 242231001778 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 242231001779 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 242231001780 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 242231001781 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 242231001782 HflX GTPase family; Region: HflX; cd01878 242231001783 G1 box; other site 242231001784 GTP/Mg2+ binding site [chemical binding]; other site 242231001785 Switch I region; other site 242231001786 G2 box; other site 242231001787 G3 box; other site 242231001788 Switch II region; other site 242231001789 G4 box; other site 242231001790 G5 box; other site 242231001791 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 242231001792 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 242231001793 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 242231001794 metal-binding site [ion binding] 242231001795 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 242231001796 Soluble P-type ATPase [General function prediction only]; Region: COG4087 242231001797 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 242231001798 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 242231001799 FAD binding pocket [chemical binding]; other site 242231001800 FAD binding motif [chemical binding]; other site 242231001801 phosphate binding motif [ion binding]; other site 242231001802 beta-alpha-beta structure motif; other site 242231001803 NAD binding pocket [chemical binding]; other site 242231001804 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 242231001805 active site 242231001806 ATP binding site [chemical binding]; other site 242231001807 threonine synthase; Validated; Region: PRK09225 242231001808 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 242231001809 pyridoxal 5'-phosphate binding site [chemical binding]; other site 242231001810 catalytic residue [active] 242231001811 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta) domain...; Region: PL_Passenger_AT; cl00185 242231001812 Autotransporter beta-domain; Region: Autotransporter; pfam03797 242231001813 recombination factor protein RarA; Reviewed; Region: PRK13342 242231001814 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 242231001815 Walker A motif; other site 242231001816 ATP binding site [chemical binding]; other site 242231001817 Walker B motif; other site 242231001818 arginine finger; other site 242231001819 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 242231001820 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 242231001821 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 242231001822 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 242231001823 ATP binding site [chemical binding]; other site 242231001824 putative Mg++ binding site [ion binding]; other site 242231001825 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 242231001826 nucleotide binding region [chemical binding]; other site 242231001827 Virulence protein RhuM family; Region: Virulence_RhuM; cl19850 242231001828 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 242231001829 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 242231001830 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 242231001831 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 242231001832 HsdM N-terminal domain; Region: HsdM_N; pfam12161 242231001833 Methyltransferase domain; Region: Methyltransf_26; pfam13659 242231001834 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 242231001835 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 242231001836 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 242231001837 dimerization interface [polypeptide binding]; other site 242231001838 active site 242231001839 A/G-specific adenine glycosylase; Region: mutY; TIGR01084 242231001840 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 242231001841 minor groove reading motif; other site 242231001842 helix-hairpin-helix signature motif; other site 242231001843 substrate binding pocket [chemical binding]; other site 242231001844 active site 242231001845 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 242231001846 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 242231001847 DNA binding and oxoG recognition site [nucleotide binding] 242231001848 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH2; cd08286 242231001849 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 242231001850 catalytic Zn binding site [ion binding]; other site 242231001851 structural Zn binding site [ion binding]; other site 242231001852 NAD(P) binding site [chemical binding]; other site 242231001853 Entner-Doudoroff aldolase; Region: eda; TIGR01182 242231001854 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 242231001855 active site 242231001856 intersubunit interface [polypeptide binding]; other site 242231001857 catalytic residue [active] 242231001858 phosphogluconate dehydratase; Validated; Region: PRK09054 242231001859 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 242231001860 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 242231001861 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 242231001862 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 242231001863 putative active site [active] 242231001864 glucokinase; Provisional; Region: glk; PRK00292 242231001865 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 242231001866 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 242231001867 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 242231001868 putative active site [active] 242231001869 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 242231001870 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 242231001871 active site 242231001872 dimer interface [polypeptide binding]; other site 242231001873 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 242231001874 dimer interface [polypeptide binding]; other site 242231001875 active site 242231001876 Baseplate J-like protein; Region: Baseplate_J; cl01294 242231001877 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 242231001878 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 242231001879 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 242231001880 non-specific DNA binding site [nucleotide binding]; other site 242231001881 salt bridge; other site 242231001882 sequence-specific DNA binding site [nucleotide binding]; other site 242231001883 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 242231001884 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 242231001885 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 242231001886 FAD binding pocket [chemical binding]; other site 242231001887 FAD binding motif [chemical binding]; other site 242231001888 phosphate binding motif [ion binding]; other site 242231001889 beta-alpha-beta structure motif; other site 242231001890 NAD binding pocket [chemical binding]; other site 242231001891 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 242231001892 active site 242231001893 DNA polymerase IV; Validated; Region: PRK02406 242231001894 DNA binding site [nucleotide binding] 242231001895 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 242231001896 Part of AAA domain; Region: AAA_19; pfam13245 242231001897 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 242231001898 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 242231001899 active site 242231001900 catalytic residue [active] 242231001901 dimer interface [polypeptide binding]; other site 242231001902 recombinase A; Provisional; Region: recA; PRK09354 242231001903 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 242231001904 hexamer interface [polypeptide binding]; other site 242231001905 Walker A motif; other site 242231001906 ATP binding site [chemical binding]; other site 242231001907 Walker B motif; other site 242231001908 hypothetical protein; Validated; Region: PRK00153 242231001909 DNA polymerase III subunits gamma and tau; Validated; Region: PRK08691 242231001910 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 242231001911 Walker A motif; other site 242231001912 ATP binding site [chemical binding]; other site 242231001913 Walker B motif; other site 242231001914 arginine finger; other site 242231001915 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 242231001916 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 242231001917 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 242231001918 ATP binding site [chemical binding]; other site 242231001919 Mg2+ binding site [ion binding]; other site 242231001920 G-X-G motif; other site 242231001921 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 242231001922 ATP binding site [chemical binding]; other site 242231001923 MutL C terminal dimerization domain; Region: MutL_C; pfam08676 242231001924 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 242231001925 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 242231001926 S-adenosylmethionine binding site [chemical binding]; other site 242231001927 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 242231001928 Tetratricopeptide repeat; Region: TPR_6; pfam13174 242231001929 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 242231001930 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta) domain...; Region: PL_Passenger_AT; cl00185 242231001931 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 242231001932 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 242231001933 active site 242231001934 phosphorylation site [posttranslational modification] 242231001935 intermolecular recognition site; other site 242231001936 dimerization interface [polypeptide binding]; other site 242231001937 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 242231001938 DNA binding residues [nucleotide binding] 242231001939 dimerization interface [polypeptide binding]; other site 242231001940 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 242231001941 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 242231001942 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 242231001943 dimerization interface [polypeptide binding]; other site 242231001944 GAF domain; Region: GAF_3; pfam13492 242231001945 Histidine kinase; Region: HisKA_3; pfam07730 242231001946 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 242231001947 ATP binding site [chemical binding]; other site 242231001948 Mg2+ binding site [ion binding]; other site 242231001949 G-X-G motif; other site 242231001950 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 242231001951 GTP binding site; other site 242231001952 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 242231001953 Lumazine binding domain; Region: Lum_binding; pfam00677 242231001954 Lumazine binding domain; Region: Lum_binding; pfam00677 242231001955 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 242231001956 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 242231001957 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 242231001958 Walker A motif; other site 242231001959 ATP binding site [chemical binding]; other site 242231001960 Walker B motif; other site 242231001961 P pilus assembly/Cpx signaling pathway, periplasmic inhibitor/zinc-resistance associated protein [Intracellular trafficking and secretion / Cell motility and secretio / Signal transduction mechanisms / Inorganic ion transport and metabolism]; Region: CpxP; COG3678 242231001962 dimer interface [polypeptide binding]; other site 242231001963 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 242231001964 substrate binding site [chemical binding]; other site 242231001965 hexamer interface [polypeptide binding]; other site 242231001966 metal binding site [ion binding]; metal-binding site 242231001967 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 242231001968 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 242231001969 Walker A motif; other site 242231001970 ATP binding site [chemical binding]; other site 242231001971 Walker B motif; other site 242231001972 arginine finger; other site 242231001973 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 242231001974 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 242231001975 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 242231001976 active site 242231001977 NTP binding site [chemical binding]; other site 242231001978 metal binding triad [ion binding]; metal-binding site 242231001979 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 242231001980 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 242231001981 Zn2+ binding site [ion binding]; other site 242231001982 Mg2+ binding site [ion binding]; other site 242231001983 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 242231001984 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 242231001985 ABC transporter; Region: ABC_tran_2; pfam12848 242231001986 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 242231001987 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 242231001988 putative catalytic residues [active] 242231001989 SurA N-terminal domain; Region: SurA_N_3; cl07813 242231001990 periplasmic folding chaperone; Provisional; Region: PRK10788 242231001991 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 242231001992 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecR; COG0353 242231001993 RecR protein; Region: RecR; pfam02132 242231001994 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 242231001995 putative active site [active] 242231001996 putative metal-binding site [ion binding]; other site 242231001997 tetramer interface [polypeptide binding]; other site 242231001998 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 242231001999 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 242231002000 FtsX-like permease family; Region: FtsX; pfam02687 242231002001 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 242231002002 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 242231002003 Walker A/P-loop; other site 242231002004 ATP binding site [chemical binding]; other site 242231002005 Q-loop/lid; other site 242231002006 ABC transporter signature motif; other site 242231002007 Walker B; other site 242231002008 D-loop; other site 242231002009 H-loop/switch region; other site 242231002010 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 242231002011 AAA domain; Region: AAA_30; pfam13604 242231002012 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 242231002013 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 242231002014 Transposase; Region: DEDD_Tnp_IS110; pfam01548 242231002015 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 242231002016 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 242231002017 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 242231002018 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 242231002019 Walker A motif; other site 242231002020 ATP binding site [chemical binding]; other site 242231002021 Walker B motif; other site 242231002022 arginine finger; other site 242231002023 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 242231002024 histone-like DNA-binding protein HU; Region: HU; cd13831 242231002025 dimer interface [polypeptide binding]; other site 242231002026 DNA binding site [nucleotide binding] 242231002027 homoserine dehydrogenase; Provisional; Region: PRK06349 242231002028 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 242231002029 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 242231002030 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 242231002031 Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a...; Region: Mth938-like; cd00248 242231002032 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 242231002033 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 242231002034 ABC transporter; Region: ABC_tran_2; pfam12848 242231002035 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 242231002036 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 242231002037 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 242231002038 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 242231002039 ligand binding site [chemical binding]; other site 242231002040 active site 242231002041 UGI interface [polypeptide binding]; other site 242231002042 catalytic site [active] 242231002043 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 242231002044 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 242231002045 Paraslipin or slipin-2 (SLP-2, a subgroup of the stomatin-like proteins (slipins) family; belonging to the SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; Region: SPFH_paraslipin; cd08829 242231002046 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 242231002047 Uncharacterized conserved protein [Function unknown]; Region: COG2921 242231002048 lipoate-protein ligase B; Provisional; Region: PRK14342 242231002049 lipoyl synthase; Provisional; Region: PRK05481 242231002050 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 242231002051 FeS/SAM binding site; other site 242231002052 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 242231002053 Ferritin-like domain; Region: Ferritin; pfam00210 242231002054 heme binding site [chemical binding]; other site 242231002055 ferroxidase pore; other site 242231002056 ferroxidase diiron center [ion binding]; other site 242231002057 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 242231002058 Ferritin-like domain; Region: Ferritin; pfam00210 242231002059 heme binding site [chemical binding]; other site 242231002060 ferroxidase pore; other site 242231002061 ferroxidase diiron center [ion binding]; other site 242231002062 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 242231002063 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 242231002064 non-specific DNA binding site [nucleotide binding]; other site 242231002065 salt bridge; other site 242231002066 sequence-specific DNA binding site [nucleotide binding]; other site 242231002067 UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: GlnD; COG2844 242231002068 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 242231002069 metal binding triad; other site 242231002070 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 242231002071 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 242231002072 Zn2+ binding site [ion binding]; other site 242231002073 Mg2+ binding site [ion binding]; other site 242231002074 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 242231002075 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 242231002076 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 242231002077 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 242231002078 active site 242231002079 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 242231002080 SPRY domain; Region: SPRY; cl02614 242231002081 ribonuclease R; Region: RNase_R; TIGR02063 242231002082 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 242231002083 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 242231002084 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 242231002085 RNA binding site [nucleotide binding]; other site 242231002086 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 242231002087 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 242231002088 G1 box; other site 242231002089 putative GEF interaction site [polypeptide binding]; other site 242231002090 GTP/Mg2+ binding site [chemical binding]; other site 242231002091 Switch I region; other site 242231002092 G2 box; other site 242231002093 G3 box; other site 242231002094 Switch II region; other site 242231002095 G4 box; other site 242231002096 G5 box; other site 242231002097 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 242231002098 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 242231002099 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 242231002100 putative substrate binding site [chemical binding]; other site 242231002101 putative ATP binding site [chemical binding]; other site 242231002102 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 242231002103 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 242231002104 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 242231002105 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 242231002106 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 242231002107 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 242231002108 biotin synthase; Region: bioB; TIGR00433 242231002109 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 242231002110 FeS/SAM binding site; other site 242231002111 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 242231002112 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 242231002113 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 242231002114 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 242231002115 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 242231002116 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 242231002117 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 242231002118 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 242231002119 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 242231002120 Ligand Binding Site [chemical binding]; other site 242231002121 TilS substrate binding domain; Region: TilS; pfam09179 242231002122 tRNA(Ile)-lysidine synthetase, C-terminal domain; Region: lysidine_TilS_C; TIGR02433 242231002123 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 242231002124 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 242231002125 RNA binding surface [nucleotide binding]; other site 242231002126 FeS assembly protein IscX; Region: iscX_yfhJ; TIGR03412 242231002127 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 242231002128 catalytic loop [active] 242231002129 iron binding site [ion binding]; other site 242231002130 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3779 242231002131 FOG: Ankyrin repeat [General function prediction only]; Region: Arp; COG0666 242231002132 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 242231002133 chaperone protein HscA; Provisional; Region: hscA; PRK05183 242231002134 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 242231002135 nucleotide binding site [chemical binding]; other site 242231002136 putative NEF/HSP70 interaction site [polypeptide binding]; other site 242231002137 SBD interface [polypeptide binding]; other site 242231002138 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 242231002139 active site lid residues [active] 242231002140 substrate binding pocket [chemical binding]; other site 242231002141 catalytic residues [active] 242231002142 substrate-Mg2+ binding site; other site 242231002143 aspartate-rich region 1; other site 242231002144 aspartate-rich region 2; other site 242231002145 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 242231002146 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 242231002147 short chain dehydrogenase; Provisional; Region: PRK08703 242231002148 short chain dehydrogenase; Provisional; Region: PRK12828 242231002149 NAD(P) binding site [chemical binding]; other site 242231002150 active site 242231002151 Uncharacterized protein involved in formation of curli polymers [Cell envelope biogenesis, outer membrane]; Region: CsgG; COG1462 242231002152 Putative bacterial lipoprotein (DUF799); Region: DUF799; pfam05643 242231002153 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 242231002154 DnaA regulatory inactivator Hda; Validated; Region: PRK08903 242231002155 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 242231002156 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 242231002157 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 242231002158 feedback inhibition sensing region; other site 242231002159 homohexameric interface [polypeptide binding]; other site 242231002160 nucleotide binding site [chemical binding]; other site 242231002161 N-acetyl-L-glutamate binding site [chemical binding]; other site 242231002162 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 242231002163 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 242231002164 putative active site [active] 242231002165 Zn binding site [ion binding]; other site 242231002166 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 242231002167 Predicted metal-binding protein related to the C-terminal domain of SecA [General function prediction only]; Region: COG3318 242231002168 yecA family protein; Region: ygfB_yecA; TIGR02292 242231002169 SEC-C motif; Region: SEC-C; cl19389 242231002170 2-isopropylmalate synthase; Validated; Region: PRK00915 242231002171 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 242231002172 active site 242231002173 catalytic residues [active] 242231002174 metal binding site [ion binding]; metal-binding site 242231002175 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 242231002176 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 242231002177 putative catalytic cysteine [active] 242231002178 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 242231002179 AAA-like domain; Region: AAA_10; pfam12846 242231002180 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 242231002181 Predicted membrane protein [Function unknown]; Region: COG3235 242231002182 camphor resistance protein CrcB; Provisional; Region: PRK14230 242231002183 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 242231002184 homooctamer interface [polypeptide binding]; other site 242231002185 active site 242231002186 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 242231002187 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 242231002188 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 242231002189 AMP binding site [chemical binding]; other site 242231002190 metal binding site [ion binding]; metal-binding site 242231002191 active site 242231002192 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 242231002193 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 242231002194 dimer interface [polypeptide binding]; other site 242231002195 active site 242231002196 glycine-pyridoxal phosphate binding site [chemical binding]; other site 242231002197 folate binding site [chemical binding]; other site 242231002198 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 242231002199 non-specific DNA binding site [nucleotide binding]; other site 242231002200 salt bridge; other site 242231002201 sequence-specific DNA binding site [nucleotide binding]; other site 242231002202 Outer membrane protein OpcA; Region: OpcA; pfam07239 242231002203 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 242231002204 ABC transporter ATPase component; Reviewed; Region: PRK11147 242231002205 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 242231002206 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 242231002207 Q-loop/lid; other site 242231002208 ABC transporter signature motif; other site 242231002209 Walker B; other site 242231002210 D-loop; other site 242231002211 H-loop/switch region; other site 242231002212 ABC transporter; Region: ABC_tran_2; pfam12848 242231002213 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 242231002214 hypothetical protein; Provisional; Region: PRK10649 242231002215 anthranilate synthase component I; Provisional; Region: PRK13565 242231002216 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 242231002217 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 242231002218 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 242231002219 cofactor binding site; other site 242231002220 DNA binding site [nucleotide binding] 242231002221 substrate interaction site [chemical binding]; other site 242231002222 NgoMIV restriction enzyme; Region: NgoMIV_restric; pfam09015 242231002223 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 242231002224 ATP-grasp domain; Region: ATP-grasp_4; cl17255 242231002225 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 242231002226 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 242231002227 Coenzyme A binding pocket [chemical binding]; other site 242231002228 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 242231002229 Smr domain; Region: Smr; pfam01713 242231002230 putative transposase OrfB; Reviewed; Region: PHA02517 242231002231 HTH-like domain; Region: HTH_21; pfam13276 242231002232 Integrase core domain; Region: rve; pfam00665 242231002233 Integrase core domain; Region: rve_2; pfam13333 242231002234 DDE superfamily endonuclease; Region: DDE_3; cl19249 242231002235 Rubredoxin [Energy production and conversion]; Region: COG1773 242231002236 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 242231002237 iron binding site [ion binding]; other site 242231002238 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 242231002239 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 242231002240 active site 242231002241 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 242231002242 Uncharacterized conserved protein [Function unknown]; Region: COG2128 242231002243 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 242231002244 D-lactate dehydrogenase; Provisional; Region: PRK11183 242231002245 FAD binding domain; Region: FAD_binding_4; cl19922 242231002246 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 242231002247 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 242231002248 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 242231002249 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 242231002250 FAD binding domain; Region: FAD_binding_4; pfam01565 242231002251 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 242231002252 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 242231002253 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 242231002254 Cysteine-rich domain; Region: CCG; pfam02754 242231002255 Cysteine-rich domain; Region: CCG; pfam02754 242231002256 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 242231002257 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 242231002258 Dihydrouridine synthase (Dus); Region: Dus; pfam01207 242231002259 FMN binding site [chemical binding]; other site 242231002260 active site 242231002261 catalytic residues [active] 242231002262 substrate binding site [chemical binding]; other site 242231002263 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 242231002264 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 242231002265 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 242231002266 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 242231002267 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 242231002268 hinge; other site 242231002269 active site 242231002270 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 242231002271 NlpC/P60 family; Region: NLPC_P60; pfam00877 242231002272 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 242231002273 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 242231002274 putative active site [active] 242231002275 catalytic site [active] 242231002276 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 242231002277 putative active site [active] 242231002278 catalytic site [active] 242231002279 putative transporter; Provisional; Region: PRK10504 242231002280 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 242231002281 putative substrate translocation pore; other site 242231002282 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 242231002283 Cysteine-rich domain; Region: CCG; pfam02754 242231002284 Cysteine-rich domain; Region: CCG; pfam02754 242231002285 Uncharacterized conserved protein [Function unknown]; Region: COG1556 242231002286 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 242231002287 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 242231002288 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 242231002289 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 242231002290 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 242231002291 putative active site [active] 242231002292 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 242231002293 putative transposase OrfB; Reviewed; Region: PHA02517 242231002294 HTH-like domain; Region: HTH_21; pfam13276 242231002295 Integrase core domain; Region: rve; pfam00665 242231002296 Integrase core domain; Region: rve_2; pfam13333 242231002297 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 242231002298 CoA binding domain; Region: CoA_binding; pfam02629 242231002299 CoA-ligase; Region: Ligase_CoA; pfam00549 242231002300 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 242231002301 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 242231002302 CoA-ligase; Region: Ligase_CoA; pfam00549 242231002303 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 242231002304 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 242231002305 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 242231002306 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 242231002307 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 242231002308 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 242231002309 E3 interaction surface; other site 242231002310 lipoyl attachment site [posttranslational modification]; other site 242231002311 e3 binding domain; Region: E3_binding; pfam02817 242231002312 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 242231002313 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 242231002314 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 242231002315 TPP-binding site [chemical binding]; other site 242231002316 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 242231002317 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 242231002318 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 242231002319 dimer interface [polypeptide binding]; other site 242231002320 active site 242231002321 citrylCoA binding site [chemical binding]; other site 242231002322 NADH binding [chemical binding]; other site 242231002323 cationic pore residues; other site 242231002324 oxalacetate/citrate binding site [chemical binding]; other site 242231002325 coenzyme A binding site [chemical binding]; other site 242231002326 catalytic triad [active] 242231002327 Uncharacterized conserved protein [Function unknown]; Region: COG2938 242231002328 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 242231002329 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 242231002330 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 242231002331 succinate dehydrogenase, flavoprotein subunit, E. coli/mitochondrial subgroup; Region: sdhA_forward; TIGR01816 242231002332 L-aspartate oxidase; Provisional; Region: PRK06175 242231002333 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 242231002334 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 242231002335 SdhC subunit interface [polypeptide binding]; other site 242231002336 proximal heme binding site [chemical binding]; other site 242231002337 cardiolipin binding site; other site 242231002338 Iron-sulfur protein interface; other site 242231002339 proximal quinone binding site [chemical binding]; other site 242231002340 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 242231002341 Iron-sulfur protein interface; other site 242231002342 proximal quinone binding site [chemical binding]; other site 242231002343 SdhD (CybS) interface [polypeptide binding]; other site 242231002344 proximal heme binding site [chemical binding]; other site 242231002345 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 242231002346 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 242231002347 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 242231002348 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 242231002349 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 242231002350 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 242231002351 catalytic triad [active] 242231002352 dimer interface [polypeptide binding]; other site 242231002353 Glutaredoxin (GRX) family, PRX5 hybrid subfamily; composed of hybrid proteins containing peroxiredoxin (PRX) and GRX domains, which is found in some pathogenic bacteria and cyanobacteria. PRXs are thiol-specific antioxidant (TSA) proteins that confer a...; Region: GRX_hybridPRX5; cd03029 242231002354 GSH binding site [chemical binding]; other site 242231002355 catalytic residues [active] 242231002356 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 242231002357 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 242231002358 THF binding site; other site 242231002359 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 242231002360 substrate binding site [chemical binding]; other site 242231002361 THF binding site; other site 242231002362 zinc-binding site [ion binding]; other site 242231002363 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 242231002364 FAD binding site [chemical binding]; other site 242231002365 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 242231002366 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 242231002367 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 242231002368 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 242231002369 Methyltransferase domain; Region: Methyltransf_31; pfam13847 242231002370 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 242231002371 S-adenosylmethionine binding site [chemical binding]; other site 242231002372 elongation factor P; Validated; Region: PRK00529 242231002373 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 242231002374 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 242231002375 RNA binding site [nucleotide binding]; other site 242231002376 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 242231002377 RNA binding site [nucleotide binding]; other site 242231002378 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; cl01823 242231002379 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 242231002380 Regulator of competence-specific genes [Transcription]; Region: TfoX; COG3070 242231002381 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 242231002382 nucleoside/Zn binding site; other site 242231002383 dimer interface [polypeptide binding]; other site 242231002384 catalytic motif [active] 242231002385 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2839 242231002386 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 242231002387 dimer interface [polypeptide binding]; other site 242231002388 active site 242231002389 catalytic residue [active] 242231002390 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 242231002391 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 242231002392 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 242231002393 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 242231002394 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 242231002395 aspartate kinase; Reviewed; Region: PRK06635 242231002396 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 242231002397 putative nucleotide binding site [chemical binding]; other site 242231002398 putative catalytic residues [active] 242231002399 putative Mg ion binding site [ion binding]; other site 242231002400 putative aspartate binding site [chemical binding]; other site 242231002401 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 242231002402 putative allosteric regulatory site; other site 242231002403 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AK-LysC-DapG-like_2; cd04923 242231002404 ribonuclease PH; Reviewed; Region: rph; PRK00173 242231002405 Ribonuclease PH; Region: RNase_PH_bact; cd11362 242231002406 hexamer interface [polypeptide binding]; other site 242231002407 active site 242231002408 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 242231002409 Ligand Binding Site [chemical binding]; other site 242231002410 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 242231002411 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 242231002412 putative ATP binding site [chemical binding]; other site 242231002413 putative substrate interface [chemical binding]; other site 242231002414 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 242231002415 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 242231002416 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting; Region: PncB_like; cd01401 242231002417 active site 242231002418 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 242231002419 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 242231002420 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 242231002421 active site 242231002422 HIGH motif; other site 242231002423 KMSK motif region; other site 242231002424 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 242231002425 tRNA binding surface [nucleotide binding]; other site 242231002426 anticodon binding site; other site 242231002427 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 242231002428 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 242231002429 dimer interface [polypeptide binding]; other site 242231002430 conserved gate region; other site 242231002431 putative PBP binding loops; other site 242231002432 ABC-ATPase subunit interface; other site 242231002433 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 242231002434 Staphylococcal nuclease homologue; Region: SNase; cl00140 242231002435 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 242231002436 tetramer (dimer of dimers) interface [polypeptide binding]; other site 242231002437 active site 242231002438 dimer interface [polypeptide binding]; other site 242231002439 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 242231002440 homotrimer interaction site [polypeptide binding]; other site 242231002441 zinc binding site [ion binding]; other site 242231002442 CDP-binding sites; other site 242231002443 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 242231002444 substrate binding site; other site 242231002445 dimer interface; other site 242231002446 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 242231002447 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 242231002448 active site 242231002449 catalytic site [active] 242231002450 substrate binding site [chemical binding]; other site 242231002451 H+ Antiporter protein; Region: 2A0121; TIGR00900 242231002452 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 242231002453 putative substrate translocation pore; other site 242231002454 Uncharacterized protein, possibly involved in nitrogen fixation [Inorganic ion transport and metabolism]; Region: FixS; COG3197 242231002455 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 242231002456 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 242231002457 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 242231002458 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 242231002459 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 242231002460 DsbD alpha interface [polypeptide binding]; other site 242231002461 catalytic residues [active] 242231002462 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 242231002463 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 242231002464 active site lid residues [active] 242231002465 substrate binding pocket [chemical binding]; other site 242231002466 catalytic residues [active] 242231002467 substrate-Mg2+ binding site; other site 242231002468 aspartate-rich region 1; other site 242231002469 aspartate-rich region 2; other site 242231002470 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl19519 242231002471 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 242231002472 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 242231002473 FAD binding domain; Region: FAD_binding_4; pfam01565 242231002474 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 242231002475 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 242231002476 SmpB-tmRNA interface; other site 242231002477 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 242231002478 putative active site [active] 242231002479 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 242231002480 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 242231002481 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 242231002482 DNA binding site [nucleotide binding] 242231002483 active site 242231002484 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 242231002485 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 242231002486 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 242231002487 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 242231002488 metal binding site [ion binding]; metal-binding site 242231002489 dimer interface [polypeptide binding]; other site 242231002490 Glucose-6-phosphate 1-dehydrogenase (EC 1.1.1.49); Region: G6PD_bact; pfam10786 242231002491 Hemerythrin-like domain; Region: Hr-like; cd12108 242231002492 Fe binding site [ion binding]; other site 242231002493 Azurin is a redox partner for enzymes such as nitrite reductase or arsenite oxidase; Region: Azurin; cd13922 242231002494 Type 1 (T1) Cu binding site [ion binding]; other site 242231002495 Protein of unknown function (DUF721); Region: DUF721; pfam05258 242231002496 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 242231002497 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 242231002498 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 242231002499 SecA Wing and Scaffold domain; Region: SecA_SW; pfam07516 242231002500 SEC-C motif; Region: SEC-C; pfam02810 242231002501 DNA primase; Validated; Region: dnaG; PRK05667 242231002502 CHC2 zinc finger; Region: zf-CHC2; pfam01807 242231002503 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 242231002504 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 242231002505 active site 242231002506 metal binding site [ion binding]; metal-binding site 242231002507 interdomain interaction site; other site 242231002508 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 242231002509 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; smart00766 242231002510 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 242231002511 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 242231002512 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 242231002513 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 242231002514 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 242231002515 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 242231002516 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 242231002517 DNA binding residues [nucleotide binding] 242231002518 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 242231002519 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 242231002520 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cd09689 242231002521 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cl12004 242231002522 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cl12004 242231002523 DDE superfamily endonuclease; Region: DDE_3; cl19249 242231002524 phage/conjugal plasmid C-4 type zinc finger protein, TraR family; Region: C4_traR_proteo; TIGR02419 242231002525 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 242231002526 metal binding triad [ion binding]; metal-binding site 242231002527 37-kD nucleoid-associated bacterial protein; Region: NA37; cl15473 242231002528 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 242231002529 non-specific DNA binding site [nucleotide binding]; other site 242231002530 salt bridge; other site 242231002531 sequence-specific DNA binding site [nucleotide binding]; other site 242231002532 phage-associated protein, BcepMu gp16 family; Region: BcepMu_gp16; TIGR04111 242231002533 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 242231002534 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 242231002535 Integrase core domain; Region: rve; pfam00665 242231002536 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 242231002537 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 242231002538 FMN binding site [chemical binding]; other site 242231002539 substrate binding site [chemical binding]; other site 242231002540 putative catalytic residue [active] 242231002541 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 242231002542 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 242231002543 4Fe-4S binding domain; Region: Fer4_5; pfam12801 242231002544 4Fe-4S dicluster domain; Region: Fer4_18; pfam13746 242231002545 IG-like fold at C-terminal of FixG, putative oxidoreductase; Region: FixG_C; pfam11614 242231002546 transketolase; Reviewed; Region: PRK12753 242231002547 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 242231002548 TPP-binding site [chemical binding]; other site 242231002549 dimer interface [polypeptide binding]; other site 242231002550 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 242231002551 PYR/PP interface [polypeptide binding]; other site 242231002552 dimer interface [polypeptide binding]; other site 242231002553 TPP binding site [chemical binding]; other site 242231002554 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 242231002555 fumarate hydratase; Reviewed; Region: fumC; PRK00485 242231002556 Class II fumarases; Region: Fumarase_classII; cd01362 242231002557 active site 242231002558 tetramer interface [polypeptide binding]; other site 242231002559 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 242231002560 EamA-like transporter family; Region: EamA; pfam00892 242231002561 EamA-like transporter family; Region: EamA; pfam00892 242231002562 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 242231002563 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 242231002564 dimer interface [polypeptide binding]; other site 242231002565 ssDNA binding site [nucleotide binding]; other site 242231002566 tetramer (dimer of dimers) interface [polypeptide binding]; other site 242231002567 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 242231002568 Major Facilitator Superfamily; Region: MFS_1; pfam07690 242231002569 putative substrate translocation pore; other site 242231002570 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 242231002571 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 242231002572 N-acetyl-D-glucosamine binding site [chemical binding]; other site 242231002573 catalytic residue [active] 242231002574 Protein of unknown function (DUF560); Region: DUF560; pfam04575 242231002575 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 242231002576 exopolyphosphatase; Region: exo_poly_only; TIGR03706 242231002577 tryptophanyl-tRNA synthetase; Reviewed; Region: PRK00927 242231002578 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 242231002579 active site 242231002580 nucleotide binding site [chemical binding]; other site 242231002581 HIGH motif; other site 242231002582 KMSKS motif; other site 242231002583 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 242231002584 Clp amino terminal domain; Region: Clp_N; pfam02861 242231002585 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 242231002586 Walker A motif; other site 242231002587 ATP binding site [chemical binding]; other site 242231002588 Walker B motif; other site 242231002589 arginine finger; other site 242231002590 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 242231002591 Walker A motif; other site 242231002592 ATP binding site [chemical binding]; other site 242231002593 Walker B motif; other site 242231002594 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 242231002595 aminotransferase AlaT; Validated; Region: PRK09265 242231002596 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 242231002597 pyridoxal 5'-phosphate binding site [chemical binding]; other site 242231002598 homodimer interface [polypeptide binding]; other site 242231002599 catalytic residue [active] 242231002600 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 242231002601 active site 1 [active] 242231002602 dimer interface [polypeptide binding]; other site 242231002603 hexamer interface [polypeptide binding]; other site 242231002604 active site 2 [active] 242231002605 ABC-type Co2+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiK; COG5266 242231002606 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 242231002607 phosphoglycolate phosphatase; Provisional; Region: PRK13222 242231002608 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 242231002609 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 242231002610 motif II; other site 242231002611 recombination regulator RecX; Reviewed; Region: recX; PRK00117 242231002612 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 242231002613 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 242231002614 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 242231002615 Peptidase family M23; Region: Peptidase_M23; pfam01551 242231002616 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 242231002617 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 242231002618 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 242231002619 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 242231002620 Transporter associated domain; Region: CorC_HlyC; pfam03471 242231002621 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 242231002622 tetramerization interface [polypeptide binding]; other site 242231002623 NAD(P) binding site [chemical binding]; other site 242231002624 catalytic residues [active] 242231002625 Inhibitor of the contact-dependent growth inhibition (CDI) system of Escherichia coli EC869, and related proteins; Region: CDI_inhibitor_EC869_like; cd13445 242231002626 CDI toxin binding surface [polypeptide binding]; other site 242231002627 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 242231002628 carbon starvation protein A; Provisional; Region: PRK15015 242231002629 Carbon starvation protein CstA; Region: CstA; pfam02554 242231002630 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 242231002631 Uncharacterized small protein [Function unknown]; Region: COG2879 242231002632 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 242231002633 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 242231002634 Immunity protein 21; Region: Imm21; pfam15569 242231002635 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 242231002636 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 242231002637 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 242231002638 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 242231002639 putative NAD(P) binding site [chemical binding]; other site 242231002640 homotetramer interface [polypeptide binding]; other site 242231002641 homodimer interface [polypeptide binding]; other site 242231002642 active site 242231002643 Cytochrome C' Region: Cytochrom_C_2; cl01610 242231002644 Glycosyltransferase family 52; Region: Glyco_transf_52; pfam07922 242231002645 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 242231002646 Prophage antirepressor [Transcription]; Region: COG3617 242231002647 BRO family, N-terminal domain; Region: Bro-N; pfam02498 242231002648 P22AR C-terminal domain; Region: P22_AR_C; pfam10548 242231002649 Protein of unknown function (DUF4043); Region: DUF4043; pfam13252 242231002650 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK13108 242231002651 MAEBL; Provisional; Region: PTZ00121 242231002652 Phage terminase large subunit; Region: Terminase_3; cl12054 242231002653 Ribonuclease H-like superfamily, including RNase H, HI, HII, HIII, and RNase-like domain IV of spliceosomal protein Prp8; Region: RNase_H_like; cl14782 242231002654 HNH endonuclease; Region: HNH_3; pfam13392 242231002655 AP2 domain; Region: AP2; pfam00847 242231002656 NinB protein; Region: NinB; pfam05772 242231002657 Protein of unknown function (DUF1364); Region: DUF1364; pfam07102 242231002658 Protein of unknwon function (DUF3310); Region: DUF3310; pfam11753 242231002659 phage replicative helicase, DnaB family, HK022 subfamily; Region: phage_DnaB; TIGR03600 242231002660 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 242231002661 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 242231002662 Walker A motif; other site 242231002663 ATP binding site [chemical binding]; other site 242231002664 Walker B motif; other site 242231002665 Helix-turn-helix domain; Region: HTH_39; pfam14090 242231002666 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 242231002667 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 242231002668 Predicted transcriptional regulator [Transcription]; Region: COG2932 242231002669 sequence-specific DNA binding site [nucleotide binding]; other site 242231002670 salt bridge; other site 242231002671 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 242231002672 Catalytic site [active] 242231002673 Uncharacterized phage-associated protein [Function unknown]; Region: GepA; COG3600 242231002674 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 242231002675 Siphovirus Gp157; Region: Sipho_Gp157; pfam05565 242231002676 Helix-turn-helix domain; Region: HTH_17; pfam12728 242231002677 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 242231002678 dimerization interface [polypeptide binding]; other site 242231002679 active site 242231002680 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 242231002681 active site 242231002682 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 242231002683 Transposase; Region: DEDD_Tnp_IS110; pfam01548 242231002684 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 242231002685 Zonular occludens toxin (Zot); Region: Zot; pfam05707 242231002686 Protein of unknown function (DUF2523); Region: DUF2523; pfam10734 242231002687 Neisseria meningitidis TspB protein; Region: Neisseria_TspB; pfam05616 242231002688 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 242231002689 tegument protein; Provisional; Region: PHA03373 242231002690 Protein of unknown function (DUF1132); Region: DUF1132; pfam06575 242231002691 Putative phage replication protein RstA [DNA replication, recombination, and repair]; Region: COG2946 242231002692 Replication initiation factor; Region: Rep_trans; pfam02486 242231002693 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 242231002694 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 242231002695 homodimer interface [polypeptide binding]; other site 242231002696 substrate-cofactor binding pocket; other site 242231002697 pyridoxal 5'-phosphate binding site [chemical binding]; other site 242231002698 catalytic residue [active] 242231002699 adaptive-response sensory kinase; Validated; Region: PRK09303 242231002700 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 242231002701 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 242231002702 substrate binding pocket [chemical binding]; other site 242231002703 membrane-bound complex binding site; other site 242231002704 hinge residues; other site 242231002705 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 242231002706 TrkA-N domain; Region: TrkA_N; pfam02254 242231002707 TrkA-C domain; Region: TrkA_C; pfam02080 242231002708 TrkA-N domain; Region: TrkA_N; pfam02254 242231002709 TrkA-C domain; Region: TrkA_C; pfam02080 242231002710 Autotransporter beta-domain; Region: Autotransporter; cl17461 242231002711 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta) domain...; Region: PL_Passenger_AT; cl00185 242231002712 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 242231002713 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 242231002714 dimer interface [polypeptide binding]; other site 242231002715 substrate binding site [chemical binding]; other site 242231002716 ATP binding site [chemical binding]; other site 242231002717 Domain of unknown function (DUF1971); Region: DUF1971; cl17717 242231002718 tellurite resistance protein TehB; Provisional; Region: PRK12335 242231002719 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 242231002720 S-adenosylmethionine binding site [chemical binding]; other site 242231002721 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 242231002722 RNA/DNA hybrid binding site [nucleotide binding]; other site 242231002723 active site 242231002724 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 242231002725 Transposase; Region: DEDD_Tnp_IS110; pfam01548 242231002726 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 242231002727 Zonular occludens toxin (Zot); Region: Zot; pfam05707 242231002728 Protein of unknown function (DUF2523); Region: DUF2523; pfam10734 242231002729 Neisseria meningitidis TspB protein; Region: Neisseria_TspB; pfam05616 242231002730 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 242231002731 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 242231002732 additional DNA contacts [nucleotide binding]; other site 242231002733 mismatch recognition site; other site 242231002734 active site 242231002735 zinc binding site [ion binding]; other site 242231002736 DNA intercalation site [nucleotide binding]; other site 242231002737 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 242231002738 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 242231002739 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 242231002740 Nitrogen regulatory protein P-II; Region: P-II; smart00938 242231002741 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 242231002742 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 242231002743 dimerization interface [polypeptide binding]; other site 242231002744 ATP binding site [chemical binding]; other site 242231002745 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 242231002746 dimerization interface [polypeptide binding]; other site 242231002747 ATP binding site [chemical binding]; other site 242231002748 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 242231002749 putative active site [active] 242231002750 catalytic triad [active] 242231002751 Old yellow enzyme (OYE)-related FMN binding domain, group 2. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_2_FMN; cd04733 242231002752 putative active site [active] 242231002753 putative FMN binding site [chemical binding]; other site 242231002754 putative substrate binding site [chemical binding]; other site 242231002755 putative catalytic residue [active] 242231002756 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 242231002757 dimerization interface [polypeptide binding]; other site 242231002758 putative DNA binding site [nucleotide binding]; other site 242231002759 putative Zn2+ binding site [ion binding]; other site 242231002760 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 242231002761 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 242231002762 MgtE intracellular N domain; Region: MgtE_N; smart00924 242231002763 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 242231002764 Divalent cation transporter; Region: MgtE; cl00786 242231002765 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 242231002766 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 242231002767 dimerization interface [polypeptide binding]; other site 242231002768 domain crossover interface; other site 242231002769 redox-dependent activation switch; other site 242231002770 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 242231002771 NlpC/P60 family; Region: NLPC_P60; pfam00877 242231002772 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 242231002773 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 242231002774 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 242231002775 heterotetramer interface [polypeptide binding]; other site 242231002776 active site pocket [active] 242231002777 cleavage site 242231002778 ClC chloride channel family. These protein sequences, closely related to the ClC Eric family, are putative halogen ion (Cl-, Br- and I-) transport proteins found in eubacteria. They belong to the ClC superfamily of chloride ion channels, which share a...; Region: EriC_like; cd01034 242231002779 putative ion selectivity filter; other site 242231002780 putative pore gating glutamate residue; other site 242231002781 putative H+/Cl- coupling transport residue; other site 242231002782 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 242231002783 DEAD-like helicases superfamily; Region: DEXDc; smart00487 242231002784 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 242231002785 ATP binding site [chemical binding]; other site 242231002786 putative Mg++ binding site [ion binding]; other site 242231002787 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 242231002788 nucleotide binding region [chemical binding]; other site 242231002789 ATP-binding site [chemical binding]; other site 242231002790 SIR2-like domain; Region: SIR2_2; pfam13289 242231002791 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 242231002792 Sulfatase; Region: Sulfatase; pfam00884 242231002793 HrpA-like helicases [DNA replication, recombination, and repair]; Region: HrpA; COG1643 242231002794 Helicase associated domain (HA2); Region: HA2; pfam04408 242231002795 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 242231002796 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 242231002797 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 242231002798 Transposase; Region: DEDD_Tnp_IS110; pfam01548 242231002799 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 242231002800 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 242231002801 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 242231002802 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 242231002803 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 242231002804 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 242231002805 glutamine binding [chemical binding]; other site 242231002806 catalytic triad [active] 242231002807 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 242231002808 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 242231002809 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 242231002810 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 242231002811 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 242231002812 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 242231002813 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 242231002814 Catalytic GIY-YIG domain of type II restriction enzyme R.Eco29kI, R.NgoMIII, and similar proteins; Region: GIY-YIG_RE_Eco29kI_NgoMIII; cd10452 242231002815 homodimer interface [polypeptide binding]; other site 242231002816 GIY-YIG motif/motif A; other site 242231002817 active site 242231002818 DNA binding site [nucleotide binding] 242231002819 putative metal binding site [ion binding]; other site 242231002820 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cl19095 242231002821 cofactor binding site; other site 242231002822 DNA binding site [nucleotide binding] 242231002823 substrate interaction site [chemical binding]; other site 242231002824 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 242231002825 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 242231002826 CTP synthetase; Validated; Region: pyrG; PRK05380 242231002827 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 242231002828 Catalytic site [active] 242231002829 active site 242231002830 UTP binding site [chemical binding]; other site 242231002831 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 242231002832 active site 242231002833 putative oxyanion hole; other site 242231002834 catalytic triad [active] 242231002835 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 242231002836 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 242231002837 acyl-activating enzyme (AAE) consensus motif; other site 242231002838 putative AMP binding site [chemical binding]; other site 242231002839 putative active site [active] 242231002840 putative CoA binding site [chemical binding]; other site 242231002841 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 242231002842 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 242231002843 Ligand Binding Site [chemical binding]; other site 242231002844 Copper(I)-binding protein [Inorganic ion transport and metabolism]; Region: COG2847 242231002845 Integral membrane diacylglycerol kinase; Region: DAGK_IM; cd14264 242231002846 putative active site [active] 242231002847 trimer interface [polypeptide binding]; other site 242231002848 putative active site [active] 242231002849 Zn binding site [ion binding]; other site 242231002850 glutathione synthetase; Provisional; Region: PRK05246 242231002851 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 242231002852 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 242231002853 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 242231002854 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 242231002855 active site 242231002856 HIGH motif; other site 242231002857 KMSKS motif; other site 242231002858 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 242231002859 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 242231002860 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 242231002861 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 242231002862 Predicted membrane protein [Function unknown]; Region: COG2431 242231002863 Transcriptional regulators [Transcription]; Region: GntR; COG1802 242231002864 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 242231002865 DNA-binding site [nucleotide binding]; DNA binding site 242231002866 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 242231002867 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 242231002868 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 242231002869 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 242231002870 active site 242231002871 substrate binding site [chemical binding]; other site 242231002872 cosubstrate binding site; other site 242231002873 catalytic site [active] 242231002874 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 242231002875 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 242231002876 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 242231002877 DNA polymerase III, chi subunit [DNA replication, recombination, and repair]; Region: HolC; COG2927 242231002878 multifunctional aminopeptidase A; Provisional; Region: PRK00913 242231002879 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 242231002880 interface (dimer of trimers) [polypeptide binding]; other site 242231002881 Substrate-binding/catalytic site; other site 242231002882 Zn-binding sites [ion binding]; other site 242231002883 Predicted permeases [General function prediction only]; Region: COG0795 242231002884 Predicted permeases [General function prediction only]; Region: COG0795 242231002885 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 242231002886 Aconitate B N-terminal domain; Region: Aconitase_B_N; pfam11791 242231002887 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 242231002888 substrate binding site [chemical binding]; other site 242231002889 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 242231002890 substrate binding site [chemical binding]; other site 242231002891 ligand binding site [chemical binding]; other site 242231002892 ornithine carbamoyltransferase; Validated; Region: PRK02102 242231002893 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 242231002894 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 242231002895 ketol-acid reductoisomerase; Provisional; Region: PRK05479 242231002896 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 242231002897 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 242231002898 Uncharacterized conserved protein [Function unknown]; Region: COG1359 242231002899 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 242231002900 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 242231002901 putative valine binding site [chemical binding]; other site 242231002902 dimer interface [polypeptide binding]; other site 242231002903 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 242231002904 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 242231002905 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 242231002906 PYR/PP interface [polypeptide binding]; other site 242231002907 dimer interface [polypeptide binding]; other site 242231002908 TPP binding site [chemical binding]; other site 242231002909 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 242231002910 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 242231002911 TPP-binding site [chemical binding]; other site 242231002912 dimer interface [polypeptide binding]; other site 242231002913 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 242231002914 Cu(I) binding site [ion binding]; other site 242231002915 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 242231002916 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 242231002917 GIY-YIG domain of uncharacterized proteins from bacteria and their eukaryotic homologs; Region: GIY-YIG_COG3680; cd10440 242231002918 GIY-YIG motif/motif A; other site 242231002919 putative active site [active] 242231002920 putative metal binding site [ion binding]; other site 242231002921 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 242231002922 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 242231002923 NAD binding site [chemical binding]; other site 242231002924 dimerization interface [polypeptide binding]; other site 242231002925 product binding site; other site 242231002926 substrate binding site [chemical binding]; other site 242231002927 zinc binding site [ion binding]; other site 242231002928 catalytic residues [active] 242231002929 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 242231002930 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 242231002931 pyridoxal 5'-phosphate binding site [chemical binding]; other site 242231002932 homodimer interface [polypeptide binding]; other site 242231002933 catalytic residue [active] 242231002934 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 242231002935 putative active site pocket [active] 242231002936 4-fold oligomerization interface [polypeptide binding]; other site 242231002937 metal binding residues [ion binding]; metal-binding site 242231002938 3-fold/trimer interface [polypeptide binding]; other site 242231002939 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 242231002940 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 242231002941 NAD-binding of NADP-dependent 3-hydroxyisobutyrate dehydrogenase; Region: NAD_binding_11; pfam14833 242231002942 Transcriptional regulators [Transcription]; Region: MarR; COG1846 242231002943 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 242231002944 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 242231002945 ABC transporter transmembrane region; Region: ABC_membrane_3; pfam13748 242231002946 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 242231002947 putative inner membrane peptidase; Provisional; Region: PRK11778 242231002948 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 242231002949 tandem repeat interface [polypeptide binding]; other site 242231002950 oligomer interface [polypeptide binding]; other site 242231002951 active site residues [active] 242231002952 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 242231002953 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 242231002954 Cupin; Region: Cupin_6; pfam12852 242231002955 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 242231002956 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 242231002957 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 242231002958 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 242231002959 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 242231002960 EamA-like transporter family; Region: EamA; pfam00892 242231002961 EamA-like transporter family; Region: EamA; pfam00892 242231002962 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 242231002963 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 242231002964 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 242231002965 motif 1; other site 242231002966 active site 242231002967 motif 2; other site 242231002968 motif 3; other site 242231002969 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 242231002970 DHHA1 domain; Region: DHHA1; pfam02272 242231002971 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 242231002972 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 242231002973 catalytic core [active] 242231002974 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 242231002975 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 242231002976 CAP-like domain; other site 242231002977 active site 242231002978 primary dimer interface [polypeptide binding]; other site 242231002979 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 242231002980 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 242231002981 Walker B motif; other site 242231002982 arginine finger; other site 242231002983 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 242231002984 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 242231002985 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 242231002986 Transposase; Region: DEDD_Tnp_IS110; pfam01548 242231002987 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 242231002988 Zonular occludens toxin (Zot); Region: Zot; pfam05707 242231002989 Protein of unknown function (DUF2523); Region: DUF2523; pfam10734 242231002990 Neisseria meningitidis TspB protein; Region: Neisseria_TspB; pfam05616 242231002991 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 242231002992 tegument protein; Provisional; Region: PHA03373 242231002993 Protein of unknown function (DUF1132); Region: DUF1132; pfam06575 242231002994 HIT domain; Region: HIT; pfam01230 242231002995 HIT family signature motif; other site 242231002996 catalytic residue [active] 242231002997 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 242231002998 dimer interface [polypeptide binding]; other site 242231002999 catalytic triad [active] 242231003000 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 242231003001 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 242231003002 Cupredoxin domain 1 of Copper-containing nitrite reductase and two-domain laccase; Region: CuRO_1_CuNIR_like; cd04201 242231003003 Type 1 (T1) Cu binding site [ion binding]; other site 242231003004 trimer interface [polypeptide binding]; other site 242231003005 Type II Cu binding site [ion binding]; other site 242231003006 Cupredoxin domain 2 of Copper-containing nitrite reductase; Region: CuRO_2_CuNIR; cd04208 242231003007 trimer interface [polypeptide binding]; other site 242231003008 Cu binding site [ion binding]; other site 242231003009 Uncharacterized conserved protein [Function unknown]; Region: COG1262 242231003010 Sulfatase-modifying factor enzyme 1; Region: FGE-sulfatase; cl19582 242231003011 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 242231003012 putative FMN binding site [chemical binding]; other site 242231003013 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 242231003014 homodimer interface [polypeptide binding]; other site 242231003015 substrate-cofactor binding pocket; other site 242231003016 pyridoxal 5'-phosphate binding site [chemical binding]; other site 242231003017 catalytic residue [active] 242231003018 Sm and related proteins; Region: Sm_like; cl00259 242231003019 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 242231003020 putative oligomer interface [polypeptide binding]; other site 242231003021 putative RNA binding site [nucleotide binding]; other site 242231003022 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 242231003023 NusA N-terminal domain; Region: NusA_N; pfam08529 242231003024 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 242231003025 RNA binding site [nucleotide binding]; other site 242231003026 homodimer interface [polypeptide binding]; other site 242231003027 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 242231003028 G-X-X-G motif; other site 242231003029 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 242231003030 G-X-X-G motif; other site 242231003031 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 242231003032 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 242231003033 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 242231003034 translation initiation factor IF-2; Validated; Region: infB; PRK05306 242231003035 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 242231003036 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 242231003037 G1 box; other site 242231003038 putative GEF interaction site [polypeptide binding]; other site 242231003039 GTP/Mg2+ binding site [chemical binding]; other site 242231003040 Switch I region; other site 242231003041 G2 box; other site 242231003042 G3 box; other site 242231003043 Switch II region; other site 242231003044 G4 box; other site 242231003045 G5 box; other site 242231003046 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 242231003047 Translation-initiation factor 2; Region: IF-2; pfam11987 242231003048 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 242231003049 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 242231003050 G1 box; other site 242231003051 GTP/Mg2+ binding site [chemical binding]; other site 242231003052 G2 box; other site 242231003053 Switch I region; other site 242231003054 G3 box; other site 242231003055 Switch II region; other site 242231003056 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 242231003057 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 242231003058 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 242231003059 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 242231003060 hypothetical protein; Validated; Region: PRK00110 242231003061 Disulfide bond formation protein DsbB [Posttranslational modification, protein turnover, chaperones]; Region: DsbB; COG1495 242231003062 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 242231003063 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 242231003064 putative DNA binding site [nucleotide binding]; other site 242231003065 putative Zn2+ binding site [ion binding]; other site 242231003066 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 242231003067 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 242231003068 active site 242231003069 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 242231003070 substrate binding site [chemical binding]; other site 242231003071 catalytic residues [active] 242231003072 dimer interface [polypeptide binding]; other site 242231003073 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 242231003074 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 242231003075 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 242231003076 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK11805 242231003077 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 242231003078 S-adenosylmethionine binding site [chemical binding]; other site 242231003079 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 242231003080 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 242231003081 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 242231003082 Flavoprotein; Region: Flavoprotein; cl19190 242231003083 DNA / pantothenate metabolizm flavoprotein; Region: DFP; pfam04127 242231003084 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 242231003085 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 242231003086 Zn2+ binding site [ion binding]; other site 242231003087 Mg2+ binding site [ion binding]; other site 242231003088 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 242231003089 synthetase active site [active] 242231003090 NTP binding site [chemical binding]; other site 242231003091 metal binding site [ion binding]; metal-binding site 242231003092 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 242231003093 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 242231003094 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 242231003095 Guanylate kinase; Region: Guanylate_kin; pfam00625 242231003096 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 242231003097 catalytic site [active] 242231003098 G-X2-G-X-G-K; other site 242231003099 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 242231003100 active site 242231003101 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 242231003102 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 242231003103 active site 242231003104 motif I; other site 242231003105 motif II; other site 242231003106 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 242231003107 putative protease; Provisional; Region: PRK15452 242231003108 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 242231003109 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 242231003110 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 242231003111 heme binding pocket [chemical binding]; other site 242231003112 heme ligand [chemical binding]; other site 242231003113 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 242231003114 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 242231003115 Paraquat-inducible protein A; Region: PqiA; pfam04403 242231003116 Paraquat-inducible protein A; Region: PqiA; pfam04403 242231003117 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 242231003118 mce related protein; Region: MCE; pfam02470 242231003119 mce related protein; Region: MCE; pfam02470 242231003120 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 242231003121 3-methyladenine DNA glycosylase [DNA replication, recombination, and repair]; Region: Tag; COG2818 242231003122 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 242231003123 active site 242231003124 catalytic triad [active] 242231003125 oxyanion hole [active] 242231003126 switch loop; other site 242231003127 glycine dehydrogenase; Provisional; Region: PRK05367 242231003128 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 242231003129 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 242231003130 catalytic residue [active] 242231003131 Glycine cleavage system protein P (pyridoxal-binding), C-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG1003 242231003132 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 242231003133 catalytic residue [active] 242231003134 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 242231003135 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 242231003136 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 242231003137 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 242231003138 pyridoxal 5'-phosphate binding site [chemical binding]; other site 242231003139 homodimer interface [polypeptide binding]; other site 242231003140 catalytic residue [active] 242231003141 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 242231003142 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 242231003143 S-adenosylmethionine binding site [chemical binding]; other site 242231003144 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 242231003145 Tetramer interface [polypeptide binding]; other site 242231003146 active site 242231003147 FMN-binding site [chemical binding]; other site 242231003148 FinO bacterial conjugation repressor domain; the basic protein FinO is part of the the two component FinOP system which is responsible for repressing bacterial conjugation; the FinOP system represses the transfer (tra) operon of the F-plasmid which...; Region: FinO_conjug_rep; cl15270 242231003149 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 242231003150 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 242231003151 ATP binding site [chemical binding]; other site 242231003152 Mg2+ binding site [ion binding]; other site 242231003153 G-X-G motif; other site 242231003154 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 242231003155 anchoring element; other site 242231003156 dimer interface [polypeptide binding]; other site 242231003157 ATP binding site [chemical binding]; other site 242231003158 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 242231003159 active site 242231003160 metal binding site [ion binding]; metal-binding site 242231003161 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 242231003162 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 242231003163 putative active site [active] 242231003164 Ap4A binding site [chemical binding]; other site 242231003165 nudix motif; other site 242231003166 putative metal binding site [ion binding]; other site 242231003167 seryl-tRNA synthetase; Provisional; Region: PRK05431 242231003168 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 242231003169 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 242231003170 dimer interface [polypeptide binding]; other site 242231003171 active site 242231003172 motif 1; other site 242231003173 motif 2; other site 242231003174 motif 3; other site 242231003175 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 242231003176 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 242231003177 putative ligand binding site [chemical binding]; other site 242231003178 putative NAD binding site [chemical binding]; other site 242231003179 catalytic site [active] 242231003180 peptide chain release factor 1; Validated; Region: prfA; PRK00591 242231003181 This domain is found in peptide chain release factors; Region: PCRF; smart00937 242231003182 RF-1 domain; Region: RF-1; pfam00472 242231003183 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 242231003184 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 242231003185 active site 242231003186 cytoplasmic asparaginase I; Provisional; Region: ansA; PRK09461 242231003187 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 242231003188 active site 242231003189 homodimer interface [polypeptide binding]; other site 242231003190 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 242231003191 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 242231003192 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 242231003193 active site 242231003194 substrate binding site [chemical binding]; other site 242231003195 metal binding site [ion binding]; metal-binding site 242231003196 Dihydropteroate synthase and related enzymes [Coenzyme metabolism]; Region: FolP; COG0294 242231003197 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 242231003198 substrate binding pocket [chemical binding]; other site 242231003199 dimer interface [polypeptide binding]; other site 242231003200 inhibitor binding site; inhibition site 242231003201 DAHP synthetase I family; Region: DAHP_synth_1; cl17225 242231003202 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 242231003203 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 242231003204 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 242231003205 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4899 242231003206 Predicted membrane protein [Function unknown]; Region: COG4648 242231003207 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 242231003208 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 242231003209 active site 2 [active] 242231003210 active site 1 [active] 242231003211 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 242231003212 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 242231003213 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 242231003214 putative metal binding site; other site 242231003215 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 242231003216 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 242231003217 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 242231003218 Na2 binding site [ion binding]; other site 242231003219 putative substrate binding site 1 [chemical binding]; other site 242231003220 Na binding site 1 [ion binding]; other site 242231003221 putative substrate binding site 2 [chemical binding]; other site 242231003222 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 242231003223 dimerization interface [polypeptide binding]; other site 242231003224 active site 242231003225 glutamate dehydrogenase; Provisional; Region: PRK09414 242231003226 Glu/Leu/Phe/Val dehydrogenase, dimerization domain; Region: ELFV_dehydrog_N; pfam02812 242231003227 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 242231003228 NAD(P) binding site [chemical binding]; other site 242231003229 Transcriptional regulators [Transcription]; Region: FadR; COG2186 242231003230 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 242231003231 DNA-binding site [nucleotide binding]; DNA binding site 242231003232 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 242231003233 L-lactate permease; Region: Lactate_perm; cl00701 242231003234 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 242231003235 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 242231003236 Outer membrane efflux protein; Region: OEP; pfam02321 242231003237 Outer membrane efflux protein; Region: OEP; pfam02321 242231003238 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 242231003239 MMPL family; Region: MMPL; cl14618 242231003240 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 242231003241 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 242231003242 HlyD family secretion protein; Region: HlyD_3; pfam13437 242231003243 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 242231003244 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 242231003245 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 242231003246 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 242231003247 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 242231003248 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 242231003249 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 242231003250 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 242231003251 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 242231003252 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 242231003253 N-terminal domain of cytochrome oxidase-cbb3, FixP; Region: FixP_N; pfam14715 242231003254 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 242231003255 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 242231003256 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 242231003257 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 242231003258 Cbb3-type cytochrome oxidase, subunit 3 [Posttranslational modification, protein turnover, chaperones]; Region: CcoQ; COG4736 242231003259 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 242231003260 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 242231003261 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 242231003262 Low-spin heme binding site [chemical binding]; other site 242231003263 Putative water exit pathway; other site 242231003264 Binuclear center (active site) [active] 242231003265 Putative proton exit pathway; other site 242231003266 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 242231003267 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 242231003268 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 242231003269 Zn binding site [ion binding]; other site 242231003270 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 242231003271 protein binding site [polypeptide binding]; other site 242231003272 TIGR01244 family protein; Region: TIGR01244 242231003273 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 242231003274 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 242231003275 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 242231003276 Gram-negative bacterial TonB protein C-terminal; Region: TonB_C; pfam03544 242231003277 Peptidase family M50; Region: Peptidase_M50; pfam02163 242231003278 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 242231003279 active site 242231003280 putative substrate binding region [chemical binding]; other site 242231003281 Glutaredoxin 2 [Posttranslational modification, protein turnover, chaperones]; Region: GrxB; COG2999 242231003282 GST_N family, Glutaredoxin 2 (GRX2) subfamily; composed of bacterial proteins similar to E. coli GRX2, an atypical GRX with a molecular mass of about 24kD, compared with other GRXs which are 9-12kD in size. GRX2 adopts a GST fold containing an N-terminal...; Region: GST_N_GRX2; cd03037 242231003283 C-terminal domain interface [polypeptide binding]; other site 242231003284 GSH binding site (G-site) [chemical binding]; other site 242231003285 catalytic residues [active] 242231003286 putative dimer interface [polypeptide binding]; other site 242231003287 C-terminal, alpha helical domain of Glutaredoxin 2; Region: GST_C_GRX2; cd03199 242231003288 N-terminal domain interface [polypeptide binding]; other site 242231003289 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 242231003290 HD domain; Region: HD_4; pfam13328 242231003291 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 242231003292 synthetase active site [active] 242231003293 NTP binding site [chemical binding]; other site 242231003294 metal binding site [ion binding]; metal-binding site 242231003295 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 242231003296 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 242231003297 Immunity protein 22; Region: Imm22; pfam15592 242231003298 Pretoxin HINT domain; Region: PT-HINT; pfam07591 242231003299 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 242231003300 thioester formation/cholesterol transfer; other site 242231003301 protein-splicing catalytic site; other site 242231003302 Pretoxin HINT domain; Region: PT-HINT; pfam07591 242231003303 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 242231003304 thioester formation/cholesterol transfer; other site 242231003305 protein-splicing catalytic site; other site 242231003306 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 242231003307 active site 242231003308 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 242231003309 Regulator of ribonuclease activity B; Region: RraB; pfam06877 242231003310 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 242231003311 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 242231003312 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 242231003313 protein-splicing catalytic site; other site 242231003314 thioester formation/cholesterol transfer; other site 242231003315 Pretoxin HINT domain; Region: PT-HINT; pfam07591 242231003316 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 242231003317 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39G; cd02423 242231003318 putative active site [active] 242231003319 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 242231003320 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 242231003321 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 242231003322 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 242231003323 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 242231003324 Predicted lipoprotein involved in nitrous oxide reduction [Energy production and conversion]; Region: NosL; COG4314 242231003325 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 242231003326 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 242231003327 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 242231003328 Walker A/P-loop; other site 242231003329 ATP binding site [chemical binding]; other site 242231003330 Q-loop/lid; other site 242231003331 ABC transporter signature motif; other site 242231003332 Walker B; other site 242231003333 D-loop; other site 242231003334 H-loop/switch region; other site 242231003335 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 242231003336 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 242231003337 tRNA; other site 242231003338 putative tRNA binding site [nucleotide binding]; other site 242231003339 putative NADP binding site [chemical binding]; other site 242231003340 Glutamyl-tRNAGlu reductase, dimerization domain; Region: GlutR_dimer; pfam00745 242231003341 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 242231003342 lipoyl attachment site [posttranslational modification]; other site 242231003343 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 242231003344 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 242231003345 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 242231003346 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 242231003347 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 242231003348 putative DNA binding site [nucleotide binding]; other site 242231003349 putative Zn2+ binding site [ion binding]; other site 242231003350 AsnC family; Region: AsnC_trans_reg; pfam01037 242231003351 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3310 242231003352 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 242231003353 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 242231003354 transmembrane helices; other site 242231003355 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 242231003356 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 242231003357 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 242231003358 lipoyl-biotinyl attachment site [posttranslational modification]; other site 242231003359 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 242231003360 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 242231003361 Na+-transporting NADH:ubiquinone oxidoreductase, subunit NqrC [Energy production and conversion]; Region: NqrC; COG2869 242231003362 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 242231003363 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 242231003364 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 242231003365 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 242231003366 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 242231003367 FAD binding pocket [chemical binding]; other site 242231003368 FAD binding motif [chemical binding]; other site 242231003369 phosphate binding motif [ion binding]; other site 242231003370 beta-alpha-beta structure motif; other site 242231003371 NAD binding pocket [chemical binding]; other site 242231003372 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 242231003373 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2991 242231003374 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 242231003375 dimer interface [polypeptide binding]; other site 242231003376 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 242231003377 serine acetyltransferase; Provisional; Region: cysE; PRK11132 242231003378 Serine acetyltransferase, N-terminal; Region: SATase_N; smart00971 242231003379 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 242231003380 trimer interface [polypeptide binding]; other site 242231003381 active site 242231003382 substrate binding site [chemical binding]; other site 242231003383 CoA binding site [chemical binding]; other site 242231003384 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 242231003385 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 242231003386 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 242231003387 Predicted transcriptional regulator [Transcription]; Region: COG2932 242231003388 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 242231003389 Catalytic site [active] 242231003390 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 242231003391 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 242231003392 nucleotide binding site [chemical binding]; other site 242231003393 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 242231003394 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 242231003395 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; cl19131 242231003396 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 242231003397 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 242231003398 dimer interface [polypeptide binding]; other site 242231003399 conserved gate region; other site 242231003400 putative PBP binding loops; other site 242231003401 ABC-ATPase subunit interface; other site 242231003402 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 242231003403 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 242231003404 Walker A/P-loop; other site 242231003405 ATP binding site [chemical binding]; other site 242231003406 Q-loop/lid; other site 242231003407 ABC transporter signature motif; other site 242231003408 Walker B; other site 242231003409 D-loop; other site 242231003410 H-loop/switch region; other site 242231003411 Predicted permease, cadmium resistance protein [Inorganic ion transport and metabolism]; Region: CadD; COG4300 242231003412 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 242231003413 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 242231003414 ATP binding site [chemical binding]; other site 242231003415 putative Mg++ binding site [ion binding]; other site 242231003416 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]; Region: COG2888; cl19729 242231003417 helicase superfamily c-terminal domain; Region: HELICc; smart00490 242231003418 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 242231003419 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 242231003420 dimerization domain [polypeptide binding]; other site 242231003421 dimer interface [polypeptide binding]; other site 242231003422 catalytic residues [active] 242231003423 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 242231003424 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 242231003425 Walker A/P-loop; other site 242231003426 ATP binding site [chemical binding]; other site 242231003427 Q-loop/lid; other site 242231003428 ABC transporter signature motif; other site 242231003429 Walker B; other site 242231003430 D-loop; other site 242231003431 H-loop/switch region; other site 242231003432 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 242231003433 FtsX-like permease family; Region: FtsX; pfam02687 242231003434 macrolide transporter subunit MacA; Provisional; Region: PRK11578 242231003435 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 242231003436 HlyD family secretion protein; Region: HlyD_3; pfam13437 242231003437 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 242231003438 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 242231003439 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 242231003440 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 242231003441 NAD binding site [chemical binding]; other site 242231003442 substrate binding site [chemical binding]; other site 242231003443 catalytic Zn binding site [ion binding]; other site 242231003444 tetramer interface [polypeptide binding]; other site 242231003445 structural Zn binding site [ion binding]; other site 242231003446 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 242231003447 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 242231003448 Walker A/P-loop; other site 242231003449 ATP binding site [chemical binding]; other site 242231003450 Q-loop/lid; other site 242231003451 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 242231003452 Trypsin-like peptidase domain; Region: Trypsin_2; cl19303 242231003453 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 242231003454 ABC transporter signature motif; other site 242231003455 Walker B; other site 242231003456 D-loop; other site 242231003457 H-loop/switch region; other site 242231003458 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 242231003459 trimer interface [polypeptide binding]; other site 242231003460 YadA-like C-terminal region; Region: YadA_anchor; pfam03895 242231003461 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 242231003462 putative active site [active] 242231003463 putative metal binding site [ion binding]; other site 242231003464 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 242231003465 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4391 242231003466 Domain of unknown function (DUF4375); Region: DUF4375; pfam14300 242231003467 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 242231003468 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 242231003469 pyridoxal 5'-phosphate binding site [chemical binding]; other site 242231003470 homodimer interface [polypeptide binding]; other site 242231003471 catalytic residue [active] 242231003472 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 242231003473 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 242231003474 dimer interface [polypeptide binding]; other site 242231003475 putative anticodon binding site; other site 242231003476 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 242231003477 motif 1; other site 242231003478 active site 242231003479 motif 2; other site 242231003480 motif 3; other site 242231003481 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 242231003482 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 242231003483 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 242231003484 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 242231003485 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 242231003486 active site 242231003487 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 242231003488 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 242231003489 purine monophosphate binding site [chemical binding]; other site 242231003490 dimer interface [polypeptide binding]; other site 242231003491 putative catalytic residues [active] 242231003492 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 242231003493 Putative ClC chloride channel. Clc proteins are putative halogen ion (Cl-, Br- and I-) transporters found in eubacteria. They belong to the ClC superfamily of halogen ion channels, which share a unique double-barreled architecture and voltage-dependent...; Region: ClC_like; cd01033 242231003494 putative ion selectivity filter; other site 242231003495 putative pore gating glutamate residue; other site 242231003496 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 242231003497 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 242231003498 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 242231003499 motif II; other site 242231003500 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 242231003501 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 242231003502 ligand binding site [chemical binding]; other site 242231003503 homodimer interface [polypeptide binding]; other site 242231003504 NAD(P) binding site [chemical binding]; other site 242231003505 trimer interface B [polypeptide binding]; other site 242231003506 trimer interface A [polypeptide binding]; other site 242231003507 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 242231003508 Predicted membrane protein [Function unknown]; Region: COG3686 242231003509 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 242231003510 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 242231003511 Transcriptional regulator [Transcription]; Region: LysR; COG0583 242231003512 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 242231003513 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA; cd08478 242231003514 putative effector binding pocket; other site 242231003515 dimerization interface [polypeptide binding]; other site 242231003516 Uncharacterized distant relative of homeotic protein bithoraxoid [General function prediction only]; Region: COG2018 242231003517 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 242231003518 active site 242231003519 phosphorylation site [posttranslational modification] 242231003520 intermolecular recognition site; other site 242231003521 dimerization interface [polypeptide binding]; other site 242231003522 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 242231003523 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 242231003524 S-adenosylmethionine binding site [chemical binding]; other site 242231003525 Protein of unknown function (DUF452); Region: DUF452; cl01062 242231003526 8-amino-7-oxononanoate synthase; Region: bioF; TIGR00858 242231003527 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 242231003528 substrate-cofactor binding pocket; other site 242231003529 pyridoxal 5'-phosphate binding site [chemical binding]; other site 242231003530 catalytic residue [active] 242231003531 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 242231003532 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 242231003533 Sodium:sulfate symporter transmembrane region; Region: Na_sulph_symp; pfam00939 242231003534 anion transporter; Region: dass; TIGR00785 242231003535 transmembrane helices; other site 242231003536 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 242231003537 oligomer interface [polypeptide binding]; other site 242231003538 putative active site [active] 242231003539 Mn binding site [ion binding]; other site 242231003540 Arginine decarboxylase (spermidine biosynthesis) [Amino acid transport and metabolism]; Region: SpeA; COG1166 242231003541 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 242231003542 dimer interface [polypeptide binding]; other site 242231003543 active site 242231003544 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 242231003545 catalytic residues [active] 242231003546 substrate binding site [chemical binding]; other site 242231003547 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 242231003548 Asp_Lys_Asn_RS_N: N-terminal, anticodon recognition domain of class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. Class 2b aaRSs include the homodimeric aspartyl-; Region: Asp_Lys_Asn_RS_N; cl19106 242231003549 tRNA synthetases class II (D, K and N); Region: tRNA-synt_2; pfam00152 242231003550 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 242231003551 homodimer interface [polypeptide binding]; other site 242231003552 motif 1; other site 242231003553 active site 242231003554 motif 2; other site 242231003555 GAD domain; Region: GAD; pfam02938 242231003556 motif 3; other site 242231003557 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 242231003558 dimer interface [polypeptide binding]; other site 242231003559 anticodon binding site; other site 242231003560 Uncharacterized conserved protein [Function unknown]; Region: COG2928 242231003561 Protein of unknown function (DUF3121); Region: DUF3121; cl11879 242231003562 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 242231003563 dimerization interface [polypeptide binding]; other site 242231003564 substrate binding site [chemical binding]; other site 242231003565 active site 242231003566 calcium binding site [ion binding]; other site 242231003567 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 242231003568 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 242231003569 TonB-dependent lactoferrin and transferrin receptors; Region: TonB-tbp-lbp; TIGR01776 242231003570 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 242231003571 N-terminal plug; other site 242231003572 ligand-binding site [chemical binding]; other site 242231003573 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 242231003574 Fic family protein [Function unknown]; Region: COG3177 242231003575 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 242231003576 Fic/DOC family; Region: Fic; pfam02661 242231003577 glutamate racemase; Provisional; Region: PRK00865 242231003578 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 242231003579 AMIN domain; Region: AMIN; pfam11741 242231003580 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 242231003581 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 242231003582 active site 242231003583 metal binding site [ion binding]; metal-binding site 242231003584 Fic family protein [Function unknown]; Region: COG3177 242231003585 Fic/DOC family; Region: Fic; pfam02661 242231003586 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 242231003587 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 242231003588 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 242231003589 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 242231003590 active site 242231003591 8-oxo-dGMP binding site [chemical binding]; other site 242231003592 nudix motif; other site 242231003593 metal binding site [ion binding]; metal-binding site 242231003594 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 242231003595 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 242231003596 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 242231003597 active site 242231003598 hydrophilic channel; other site 242231003599 dimerization interface [polypeptide binding]; other site 242231003600 catalytic residues [active] 242231003601 active site lid [active] 242231003602 Recombination protein O N terminal; Region: RecO_N; pfam11967 242231003603 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecO; COG1381 242231003604 Recombination protein O C terminal; Region: RecO_C; pfam02565 242231003605 chorismate mutase domain of proteobacterial P-protein, clade 2; Region: CM_P2; TIGR01807 242231003606 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 242231003607 Prephenate dehydratase; Region: PDT; pfam00800 242231003608 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 242231003609 putative L-Phe binding site [chemical binding]; other site 242231003610 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 242231003611 putative substrate translocation pore; other site 242231003612 EamA-like transporter family; Region: EamA; pfam00892 242231003613 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 242231003614 EamA-like transporter family; Region: EamA; pfam00892 242231003615 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 242231003616 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 242231003617 putative active site [active] 242231003618 catalytic triad [active] 242231003619 dimer interface [polypeptide binding]; other site 242231003620 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 242231003621 prephenate dehydrogenase; Validated; Region: PRK08507 242231003622 Uncharacterized protein involved in response to NO [Inorganic ion transport and metabolism]; Region: NnrS; COG3213 242231003623 Transcriptional regulator; Region: Rrf2; cl17282 242231003624 Rrf2 family protein; Region: rrf2_super; TIGR00738 242231003625 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 242231003626 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 242231003627 hypothetical protein; Provisional; Region: PRK10621 242231003628 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 242231003629 Subgroup of Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS)...; Region: Ec2MCS_like_1; cd06117 242231003630 dimer interface [polypeptide binding]; other site 242231003631 active site 242231003632 citrylCoA binding site [chemical binding]; other site 242231003633 oxalacetate/citrate binding site [chemical binding]; other site 242231003634 coenzyme A binding site [chemical binding]; other site 242231003635 catalytic triad [active] 242231003636 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 242231003637 tetramer interface [polypeptide binding]; other site 242231003638 active site 242231003639 Mg2+/Mn2+ binding site [ion binding]; other site 242231003640 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 242231003641 cell division protein FtsZ; Validated; Region: PRK09330 242231003642 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 242231003643 nucleotide binding site [chemical binding]; other site 242231003644 SulA interaction site; other site 242231003645 cell division protein FtsA; Region: ftsA; TIGR01174 242231003646 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 242231003647 nucleotide binding site [chemical binding]; other site 242231003648 SHS2 domain inserted in FTSA; Region: SHS2_FTSA; pfam02491 242231003649 Cell division protein FtsA; Region: FtsA; pfam14450 242231003650 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 242231003651 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 242231003652 Cell division protein FtsQ; Region: FtsQ; pfam03799 242231003653 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 242231003654 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 242231003655 ATP-grasp domain; Region: ATP-grasp_4; cl17255 242231003656 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 242231003657 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 242231003658 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 242231003659 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 242231003660 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 242231003661 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 242231003662 active site 242231003663 homodimer interface [polypeptide binding]; other site 242231003664 cell division protein FtsW; Region: ftsW; TIGR02614 242231003665 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK04308 242231003666 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 242231003667 NAD(P) binding site [chemical binding]; other site 242231003668 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 242231003669 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 242231003670 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 242231003671 Sel1-like repeats; Region: SEL1; smart00671 242231003672 Sel1-like repeats; Region: SEL1; smart00671 242231003673 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 242231003674 Mg++ binding site [ion binding]; other site 242231003675 putative catalytic motif [active] 242231003676 putative substrate binding site [chemical binding]; other site 242231003677 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 242231003678 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 242231003679 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 242231003680 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 242231003681 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 242231003682 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 242231003683 Sulfatase; Region: Sulfatase; pfam00884 242231003684 UDP-N-acetylmuramyl-tripeptide synthetase; Region: murE; TIGR01085 242231003685 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 242231003686 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 242231003687 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 242231003688 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 242231003689 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 242231003690 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 242231003691 Lipopolysaccharide-assembly, LptC-related; Region: LptC; cl01200 242231003692 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 242231003693 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2001 242231003694 MraZ protein; Region: MraZ; pfam02381 242231003695 MraZ protein; Region: MraZ; pfam02381 242231003696 Uncharacterized conserved protein [Function unknown]; Region: COG1565 242231003697 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 242231003698 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 242231003699 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 242231003700 catalytic residues [active] 242231003701 hinge region; other site 242231003702 alpha helical domain; other site 242231003703 cell division protein FtsN; Region: ftsN; TIGR02223 242231003704 Sporulation related domain; Region: SPOR; pfam05036 242231003705 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 242231003706 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 242231003707 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 242231003708 Walker A motif; other site 242231003709 ATP binding site [chemical binding]; other site 242231003710 Walker B motif; other site 242231003711 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 242231003712 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 242231003713 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 242231003714 Na binding site [ion binding]; other site 242231003715 putative outer membrane lipoprotein; Provisional; Region: PRK10510 242231003716 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; pfam05433 242231003717 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 242231003718 ligand binding site [chemical binding]; other site 242231003719 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 242231003720 putative catalytic site [active] 242231003721 putative phosphate binding site [ion binding]; other site 242231003722 active site 242231003723 metal binding site A [ion binding]; metal-binding site 242231003724 DNA binding site [nucleotide binding] 242231003725 putative AP binding site [nucleotide binding]; other site 242231003726 putative metal binding site B [ion binding]; other site 242231003727 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 242231003728 dimerization interface [polypeptide binding]; other site 242231003729 putative DNA binding site [nucleotide binding]; other site 242231003730 putative Zn2+ binding site [ion binding]; other site 242231003731 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 242231003732 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 242231003733 dimerization interface [polypeptide binding]; other site 242231003734 active site 242231003735 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 242231003736 quinolinate synthetase; Provisional; Region: PRK09375 242231003737 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 242231003738 L-aspartate oxidase; Provisional; Region: PRK06175 242231003739 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 242231003740 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 242231003741 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 242231003742 ABC transporter; Region: ABC_tran_2; pfam12848 242231003743 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 242231003744 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 242231003745 tetramer interfaces [polypeptide binding]; other site 242231003746 binuclear metal-binding site [ion binding]; other site 242231003747 thiamine-monophosphate kinase; Region: thiL; TIGR01379 242231003748 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 242231003749 ATP binding site [chemical binding]; other site 242231003750 dimerization interface [polypeptide binding]; other site 242231003751 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 242231003752 ligand binding site [chemical binding]; other site 242231003753 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12682 242231003754 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 242231003755 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 242231003756 substrate binding site [chemical binding]; other site 242231003757 dimerization interface [polypeptide binding]; other site 242231003758 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 242231003759 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 242231003760 ligand binding site [chemical binding]; other site 242231003761 flexible hinge region; other site 242231003762 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 242231003763 putative switch regulator; other site 242231003764 non-specific DNA interactions [nucleotide binding]; other site 242231003765 DNA binding site [nucleotide binding] 242231003766 sequence specific DNA binding site [nucleotide binding]; other site 242231003767 putative cAMP binding site [chemical binding]; other site 242231003768 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 242231003769 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 242231003770 FeS/SAM binding site; other site 242231003771 HemN C-terminal domain; Region: HemN_C; pfam06969 242231003772 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 242231003773 Uncharacterized protein family (UPF0075); Region: UPF0075; pfam03702 242231003774 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 242231003775 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 242231003776 protein-splicing catalytic site; other site 242231003777 thioester formation/cholesterol transfer; other site 242231003778 Pretoxin HINT domain; Region: PT-HINT; pfam07591 242231003779 Pretoxin HINT domain; Region: PT-HINT; pfam07591 242231003780 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 242231003781 thioester formation/cholesterol transfer; other site 242231003782 protein-splicing catalytic site; other site 242231003783 Putative toxin 46; Region: Toxin_46; pfam15526 242231003784 Immunity protein 22; Region: Imm22; pfam15592 242231003785 Immunity protein 22; Region: Imm22; pfam15592 242231003786 Pretoxin HINT domain; Region: PT-HINT; pfam07591 242231003787 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 242231003788 thioester formation/cholesterol transfer; other site 242231003789 protein-splicing catalytic site; other site 242231003790 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 242231003791 active site 242231003792 Domain of unknown function (DUF4265); Region: DUF4265; pfam14085 242231003793 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 242231003794 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 242231003795 GIY-YIG motif/motif A; other site 242231003796 putative active site [active] 242231003797 putative metal binding site [ion binding]; other site 242231003798 AmpG-like permease; Region: 2A0125; TIGR00901 242231003799 Major Facilitator Superfamily; Region: MFS_1; pfam07690 242231003800 glutamine synthetase; Provisional; Region: glnA; PRK09469 242231003801 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 242231003802 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 242231003803 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 242231003804 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 242231003805 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 242231003806 shikimate binding site; other site 242231003807 NAD(P) binding site [chemical binding]; other site 242231003808 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 242231003809 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 242231003810 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 242231003811 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 242231003812 Walker A/P-loop; other site 242231003813 ATP binding site [chemical binding]; other site 242231003814 Q-loop/lid; other site 242231003815 ABC transporter signature motif; other site 242231003816 Walker B; other site 242231003817 D-loop; other site 242231003818 H-loop/switch region; other site 242231003819 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 242231003820 OstA-like protein; Region: OstA; pfam03968 242231003821 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 242231003822 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 242231003823 active site 242231003824 motif I; other site 242231003825 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 242231003826 motif II; other site 242231003827 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 242231003828 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 242231003829 putative active site [active] 242231003830 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 242231003831 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 242231003832 putative active site [active] 242231003833 catalytic residue [active] 242231003834 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 242231003835 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 242231003836 active site 242231003837 nucleotide binding site [chemical binding]; other site 242231003838 HIGH motif; other site 242231003839 KMSKS motif; other site 242231003840 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 242231003841 Dihydrouridine synthase (Dus); Region: Dus; pfam01207 242231003842 FMN binding site [chemical binding]; other site 242231003843 active site 242231003844 catalytic residues [active] 242231003845 substrate binding site [chemical binding]; other site 242231003846 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 242231003847 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 242231003848 active site 242231003849 DNA binding site [nucleotide binding] 242231003850 Int/Topo IB signature motif; other site 242231003851 Pyocin activator protein PrtN; Region: PyocinActivator; pfam11112 242231003852 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 242231003853 Methyltransferase domain; Region: Methyltransf_26; pfam13659 242231003854 Siphovirus Gp157; Region: Sipho_Gp157; pfam05565 242231003855 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 242231003856 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 242231003857 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 242231003858 Predicted RNA binding protein (dsRBD-like fold), HicA family [General function prediction only]; Region: COG1724 242231003859 Protein of unknown function (DUF3037); Region: DUF3037; pfam11236 242231003860 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 242231003861 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 242231003862 non-specific DNA binding site [nucleotide binding]; other site 242231003863 sequence-specific DNA binding site [nucleotide binding]; other site 242231003864 salt bridge; other site 242231003865 Predicted transcriptional regulator [Transcription]; Region: COG2932 242231003866 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 242231003867 Catalytic site [active] 242231003868 Helix-turn-helix domain; Region: HTH_39; pfam14090 242231003869 Helix-turn-helix domain; Region: HTH_36; pfam13730 242231003870 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 242231003871 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 242231003872 Walker A motif; other site 242231003873 ATP binding site [chemical binding]; other site 242231003874 Walker B motif; other site 242231003875 arginine finger; other site 242231003876 Protein of unknwon function (DUF3310); Region: DUF3310; pfam11753 242231003877 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 242231003878 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 242231003879 Transposase; Region: DEDD_Tnp_IS110; pfam01548 242231003880 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 242231003881 Zonular occludens toxin (Zot); Region: Zot; pfam05707 242231003882 Protein of unknown function (DUF2523); Region: DUF2523; pfam10734 242231003883 Protein of unknown function (DUF2523); Region: DUF2523; pfam10734 242231003884 Zonular occludens toxin (Zot); Region: Zot; cl17485 242231003885 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 242231003886 Transposase; Region: DEDD_Tnp_IS110; pfam01548 242231003887 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 242231003888 TIGR02594 family protein; Region: TIGR02594 242231003889 PemK-like protein; Region: PemK; cl00995 242231003890 BRO family, N-terminal domain; Region: Bro-N; smart01040 242231003891 P22AR C-terminal domain; Region: P22_AR_C; pfam10548 242231003892 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 242231003893 putative active site [active] 242231003894 dimerization interface [polypeptide binding]; other site 242231003895 putative tRNAtyr binding site [nucleotide binding]; other site 242231003896 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 242231003897 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 242231003898 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 242231003899 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 242231003900 YCII-related domain; Region: YCII; cl00999 242231003901 intracellular septation protein A; Reviewed; Region: PRK00259 242231003902 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]; Region: COG2956 242231003903 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 242231003904 TPR motif; other site 242231003905 binding surface 242231003906 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 242231003907 TPR motif; other site 242231003908 binding surface 242231003909 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 242231003910 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 242231003911 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 242231003912 homodimer interface [polypeptide binding]; other site 242231003913 substrate-cofactor binding pocket; other site 242231003914 catalytic residue [active] 242231003915 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 242231003916 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 242231003917 NAD binding site [chemical binding]; other site 242231003918 homotetramer interface [polypeptide binding]; other site 242231003919 homodimer interface [polypeptide binding]; other site 242231003920 substrate binding site [chemical binding]; other site 242231003921 active site 242231003922 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 242231003923 Tetrahydrodipicolinate N-succinyltransferase N-terminal; Region: THDPS_N_2; pfam14805 242231003924 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 242231003925 trimer interface [polypeptide binding]; other site 242231003926 active site 242231003927 substrate binding site [chemical binding]; other site 242231003928 CoA binding site [chemical binding]; other site 242231003929 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 242231003930 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 242231003931 active site 242231003932 dimer interface [polypeptide binding]; other site 242231003933 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 242231003934 dimer interface [polypeptide binding]; other site 242231003935 active site 242231003936 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 242231003937 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 242231003938 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 242231003939 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 242231003940 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 242231003941 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 242231003942 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 242231003943 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 242231003944 CoA-binding site [chemical binding]; other site 242231003945 ATP-binding [chemical binding]; other site 242231003946 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3024 242231003947 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 242231003948 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 242231003949 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 242231003950 Walker A motif; other site 242231003951 ATP binding site [chemical binding]; other site 242231003952 Walker B motif; other site 242231003953 Predicted membrane protein [Function unknown]; Region: COG2707 242231003954 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 242231003955 substrate binding pocket [chemical binding]; other site 242231003956 chain length determination region; other site 242231003957 substrate-Mg2+ binding site; other site 242231003958 catalytic residues [active] 242231003959 aspartate-rich region 1; other site 242231003960 active site lid residues [active] 242231003961 aspartate-rich region 2; other site 242231003962 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 242231003963 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 242231003964 Squalene epoxidase; Region: SE; cl17314 242231003965 hypothetical protein; Provisional; Region: PRK09126 242231003966 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 242231003967 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 242231003968 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 242231003969 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 242231003970 putative substrate translocation pore; other site 242231003971 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 242231003972 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 242231003973 HlyD family secretion protein; Region: HlyD_3; pfam13437 242231003974 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 242231003975 hypothetical protein; Provisional; Region: PRK11212 242231003976 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 242231003977 Peptidase family M23; Region: Peptidase_M23; pfam01551 242231003978 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 242231003979 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 242231003980 binding surface 242231003981 Tetratricopeptide repeat; Region: TPR_16; pfam13432 242231003982 TPR motif; other site 242231003983 Protein of unknown function (DUF560); Region: DUF560; pfam04575 242231003984 Predicted membrane protein [Function unknown]; Region: COG1981 242231003985 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 242231003986 putative active site [active] 242231003987 putative metal binding residues [ion binding]; other site 242231003988 signature motif; other site 242231003989 putative dimer interface [polypeptide binding]; other site 242231003990 putative phosphate binding site [ion binding]; other site 242231003991 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 242231003992 folate binding site [chemical binding]; other site 242231003993 NADP+ binding site [chemical binding]; other site 242231003994 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 242231003995 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4137 242231003996 signal recognition particle protein; Provisional; Region: PRK10867 242231003997 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 242231003998 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 242231003999 P loop; other site 242231004000 GTP binding site [chemical binding]; other site 242231004001 Signal peptide binding domain; Region: SRP_SPB; pfam02978 242231004002 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 242231004003 dimerization interface [polypeptide binding]; other site 242231004004 Nitroreductase-like family 4. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_4; cd02140 242231004005 FMN binding site [chemical binding]; other site 242231004006 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 242231004007 Transposase; Region: DEDD_Tnp_IS110; pfam01548 242231004008 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 242231004009 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 242231004010 FMN binding site [chemical binding]; other site 242231004011 Predicted membrane protein [Function unknown]; Region: COG2259 242231004012 Transcriptional regulator [Transcription]; Region: LysR; COG0583 242231004013 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 242231004014 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 242231004015 putative effector binding pocket; other site 242231004016 dimerization interface [polypeptide binding]; other site 242231004017 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 242231004018 DNA photolyase; Region: DNA_photolyase; pfam00875 242231004019 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 242231004020 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 242231004021 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 242231004022 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 242231004023 Protein of unknown function (DUF533); Region: DUF533; pfam04391 242231004024 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 242231004025 putative metal binding site [ion binding]; other site 242231004026 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 242231004027 adenylosuccinate lyase; Provisional; Region: PRK09285 242231004028 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 242231004029 tetramer interface [polypeptide binding]; other site 242231004030 active site 242231004031 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 242231004032 Exoribonuclease R [Transcription]; Region: VacB; COG0557 242231004033 RNB domain; Region: RNB; pfam00773 242231004034 SurA N-terminal domain; Region: SurA_N; pfam09312 242231004035 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 242231004036 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 242231004037 Organic solvent tolerance protein; Region: OstA_C; pfam04453 242231004038 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 242231004039 Phosphotransferase enzyme family; Region: APH; pfam01636 242231004040 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 242231004041 catalytic residues [active] 242231004042 hinge region; other site 242231004043 alpha helical domain; other site 242231004044 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 242231004045 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 242231004046 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 242231004047 Putative lysophospholipase; Region: Hydrolase_4; cl19140 242231004048 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 242231004049 active site 242231004050 ribulose/triose binding site [chemical binding]; other site 242231004051 phosphate binding site [ion binding]; other site 242231004052 substrate (anthranilate) binding pocket [chemical binding]; other site 242231004053 product (indole) binding pocket [chemical binding]; other site 242231004054 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 242231004055 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 242231004056 ATP binding site [chemical binding]; other site 242231004057 putative Mg++ binding site [ion binding]; other site 242231004058 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 242231004059 nucleotide binding region [chemical binding]; other site 242231004060 ATP-binding site [chemical binding]; other site 242231004061 RQC domain; Region: RQC; pfam09382 242231004062 Helicase and RNase D C-terminal; Region: HRDC; smart00341 242231004063 Helicase and RNase D C-terminal; Region: HRDC; smart00341 242231004064 Helicase and RNase D C-terminal; Region: HRDC; smart00341 242231004065 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 242231004066 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 242231004067 Putative lysophospholipase; Region: Hydrolase_4; cl19140 242231004068 TAP-like protein; Region: Abhydrolase_4; pfam08386 242231004069 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 242231004070 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 242231004071 active site 242231004072 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 242231004073 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 242231004074 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 242231004075 Predicted membrane protein [Function unknown]; Region: COG3212 242231004076 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 242231004077 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 242231004078 RuvA N terminal domain; Region: RuvA_N; pfam01330 242231004079 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 242231004080 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 242231004081 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 242231004082 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 242231004083 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 242231004084 Walker A/P-loop; other site 242231004085 ATP binding site [chemical binding]; other site 242231004086 Q-loop/lid; other site 242231004087 ABC transporter signature motif; other site 242231004088 Walker B; other site 242231004089 D-loop; other site 242231004090 H-loop/switch region; other site 242231004091 GTPase RsgA; Reviewed; Region: PRK00098 242231004092 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 242231004093 RNA binding site [nucleotide binding]; other site 242231004094 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 242231004095 GTPase/Zn-binding domain interface [polypeptide binding]; other site 242231004096 GTP/Mg2+ binding site [chemical binding]; other site 242231004097 G4 box; other site 242231004098 G5 box; other site 242231004099 G1 box; other site 242231004100 Switch I region; other site 242231004101 G2 box; other site 242231004102 G3 box; other site 242231004103 Switch II region; other site 242231004104 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 242231004105 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 242231004106 substrate binding pocket [chemical binding]; other site 242231004107 chain length determination region; other site 242231004108 substrate-Mg2+ binding site; other site 242231004109 catalytic residues [active] 242231004110 aspartate-rich region 1; other site 242231004111 active site lid residues [active] 242231004112 aspartate-rich region 2; other site 242231004113 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 242231004114 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 242231004115 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 242231004116 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 242231004117 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 242231004118 Catalytic domain of type II restriction endonucleases BfiI and NgoFVII, and uncharacterized proteins with a DEAD domain; Region: PLDc_Bfil_DEXD_like; cd09117 242231004119 PLD-like domain; Region: PLDc_2; pfam13091 242231004120 homodimer interface [polypeptide binding]; other site 242231004121 putative active site [active] 242231004122 catalytic site [active] 242231004123 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 242231004124 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 242231004125 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 242231004126 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 242231004127 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 242231004128 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 242231004129 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 242231004130 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 242231004131 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 242231004132 NADH dehydrogenase subunit G; Validated; Region: PRK09129 242231004133 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 242231004134 catalytic loop [active] 242231004135 iron binding site [ion binding]; other site 242231004136 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 242231004137 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 242231004138 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 242231004139 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 242231004140 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 242231004141 SLBB domain; Region: SLBB; pfam10531 242231004142 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 242231004143 NADH-quinone oxidoreductase, E subunit; Region: nuoE_fam; TIGR01958 242231004144 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 242231004145 putative dimer interface [polypeptide binding]; other site 242231004146 [2Fe-2S] cluster binding site [ion binding]; other site 242231004147 NADH dehydrogenase subunit D; Validated; Region: PRK06075 242231004148 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 242231004149 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 242231004150 NADH dehydrogenase subunit B; Validated; Region: PRK06411 242231004151 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 242231004152 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 242231004153 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 242231004154 S-adenosylmethionine binding site [chemical binding]; other site 242231004155 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 242231004156 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 242231004157 DNA helicase II; Region: uvrD; TIGR01075 242231004158 Part of AAA domain; Region: AAA_19; pfam13245 242231004159 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 242231004160 Hemimethylated DNA-binding protein YccV like; Region: YccV-like; cl01548 242231004161 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 242231004162 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 242231004163 metal binding triad; other site 242231004164 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 242231004165 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 242231004166 metal binding triad; other site 242231004167 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4304 242231004168 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 242231004169 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 242231004170 quinone interaction residues [chemical binding]; other site 242231004171 active site 242231004172 catalytic residues [active] 242231004173 FMN binding site [chemical binding]; other site 242231004174 substrate binding site [chemical binding]; other site 242231004175 acyl carrier protein; Provisional; Region: acpP; PRK00982 242231004176 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 242231004177 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 242231004178 dimer interface [polypeptide binding]; other site 242231004179 active site 242231004180 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 242231004181 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 242231004182 putative ADP-binding pocket [chemical binding]; other site 242231004183 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 242231004184 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 242231004185 tetramer interface [polypeptide binding]; other site 242231004186 heme binding pocket [chemical binding]; other site 242231004187 NADPH binding site [chemical binding]; other site 242231004188 Predicted membrane protein [Function unknown]; Region: COG1971 242231004189 Domain of unknown function DUF; Region: DUF204; pfam02659 242231004190 Domain of unknown function DUF; Region: DUF204; pfam02659 242231004191 Domain of unknown function (DUF4349); Region: DUF4349; pfam14257 242231004192 tryptophan tryptophylquinone biosynthesis enzyme MauG; Region: TTQ_mauG; TIGR03791 242231004193 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 242231004194 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 242231004195 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 242231004196 active site 242231004197 Zn binding site [ion binding]; other site 242231004198 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 242231004199 Mechanosensitive ion channel; Region: MS_channel; pfam00924 242231004200 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 242231004201 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 242231004202 ATP binding site [chemical binding]; other site 242231004203 Mg2+ binding site [ion binding]; other site 242231004204 G-X-G motif; other site 242231004205 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 242231004206 anchoring element; other site 242231004207 dimer interface [polypeptide binding]; other site 242231004208 ATP binding site [chemical binding]; other site 242231004209 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 242231004210 active site 242231004211 putative metal-binding site [ion binding]; other site 242231004212 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 242231004213 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 242231004214 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 242231004215 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 242231004216 putative cation:proton antiport protein; Provisional; Region: PRK10669 242231004217 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 242231004218 TrkA-N domain; Region: TrkA_N; pfam02254 242231004219 TrkA-C domain; Region: TrkA_C; pfam02080 242231004220 ferredoxin; Provisional; Region: PRK08764 242231004221 Putative Fe-S cluster; Region: FeS; cl17515 242231004222 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 242231004223 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 242231004224 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 242231004225 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 242231004226 Leu/Phe-tRNA-protein transferase [Posttranslational modification, protein turnover, chaperones]; Region: Aat; COG2360 242231004227 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 242231004228 metal binding site 2 [ion binding]; metal-binding site 242231004229 putative DNA binding helix; other site 242231004230 metal binding site 1 [ion binding]; metal-binding site 242231004231 dimer interface [polypeptide binding]; other site 242231004232 structural Zn2+ binding site [ion binding]; other site 242231004233 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 242231004234 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 242231004235 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 242231004236 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 242231004237 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 242231004238 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 242231004239 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 242231004240 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 242231004241 RNA binding surface [nucleotide binding]; other site 242231004242 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 242231004243 active site 242231004244 ribonuclease E; Reviewed; Region: rne; PRK10811 242231004245 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 242231004246 homodimer interface [polypeptide binding]; other site 242231004247 oligonucleotide binding site [chemical binding]; other site 242231004248 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 242231004249 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 242231004250 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 242231004251 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 242231004252 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 242231004253 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 242231004254 Bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 242231004255 RNA/DNA hybrid binding site [nucleotide binding]; other site 242231004256 active site 242231004257 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 242231004258 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 242231004259 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 242231004260 P-loop; other site 242231004261 Magnesium ion binding site [ion binding]; other site 242231004262 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 242231004263 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 242231004264 S-adenosylmethionine binding site [chemical binding]; other site 242231004265 GldH lipoprotein; Region: GldH_lipo; cl11905 242231004266 Predicted membrane protein [Function unknown]; Region: COG1289 242231004267 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 242231004268 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 242231004269 cofactor binding site; other site 242231004270 DNA binding site [nucleotide binding] 242231004271 substrate interaction site [chemical binding]; other site 242231004272 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 242231004273 hinge region; other site 242231004274 Cis (Z)-Isoprenyl Diphosphate Synthases; Region: Cis_IPPS; cd00475 242231004275 active site 242231004276 dimer interface [polypeptide binding]; other site 242231004277 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 242231004278 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 242231004279 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 242231004280 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 242231004281 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 242231004282 zinc metallopeptidase RseP; Provisional; Region: PRK10779 242231004283 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 242231004284 active site 242231004285 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 242231004286 protein binding site [polypeptide binding]; other site 242231004287 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 242231004288 protein binding site [polypeptide binding]; other site 242231004289 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 242231004290 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 242231004291 putative substrate binding region [chemical binding]; other site 242231004292 putative substrate binding region [chemical binding]; other site 242231004293 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 242231004294 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 242231004295 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 242231004296 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 242231004297 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 242231004298 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 242231004299 Surface antigen; Region: Bac_surface_Ag; pfam01103 242231004300 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: HlpA; COG2825 242231004301 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 242231004302 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 242231004303 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 242231004304 trimer interface [polypeptide binding]; other site 242231004305 active site 242231004306 UDP-GlcNAc binding site [chemical binding]; other site 242231004307 lipid binding site [chemical binding]; lipid-binding site 242231004308 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 242231004309 Abi-like protein; Region: Abi_2; pfam07751 242231004310 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 242231004311 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 242231004312 active site 242231004313 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 242231004314 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 242231004315 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 242231004316 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 242231004317 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 242231004318 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 242231004319 active site 242231004320 HIGH motif; other site 242231004321 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 242231004322 KMSKS motif; other site 242231004323 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 242231004324 tRNA binding surface [nucleotide binding]; other site 242231004325 anticodon binding site; other site 242231004326 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 242231004327 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 242231004328 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 242231004329 dimerization interface 3.5A [polypeptide binding]; other site 242231004330 active site 242231004331 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 242231004332 trimer interface [polypeptide binding]; other site 242231004333 eyelet of channel; other site 242231004334 Transcriptional regulator [Transcription]; Region: LysR; COG0583 242231004335 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 242231004336 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 242231004337 dimerization interface [polypeptide binding]; other site 242231004338 cell division topological specificity factor MinE; Provisional; Region: PRK13989 242231004339 similar to septum site-determining protein (MinD); fragment; NGO1815; Best Blastp Hit: pir||C81230 septum site-determining protein MinD NMB0171 [imported] - Neisseria meningitidis (group B strain MD58, group A strain Z2491) >gi|7225389|gb|AAF40628.1| (AE002374) septum site-determining protein MinD [Neisseria meningitidis MC58] >gi|7378872|emb|CAB83415.1| (AL162752) septum site-determining protein [Neisseria meningitidis]; COG0455 ATPases involved in chromosome partitioning 242231004340 septum formation inhibitor; Reviewed; Region: minC; PRK04516 242231004341 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 242231004342 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 242231004343 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 242231004344 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 242231004345 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 242231004346 alphaNTD homodimer interface [polypeptide binding]; other site 242231004347 alphaNTD - beta interaction site [polypeptide binding]; other site 242231004348 alphaNTD - beta' interaction site [polypeptide binding]; other site 242231004349 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 242231004350 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 242231004351 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 242231004352 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 242231004353 RNA binding surface [nucleotide binding]; other site 242231004354 30S ribosomal protein S11; Validated; Region: PRK05309 242231004355 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 242231004356 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 242231004357 rRNA binding site [nucleotide binding]; other site 242231004358 predicted 30S ribosome binding site; other site 242231004359 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 242231004360 SecY translocase; Region: SecY; pfam00344 242231004361 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 242231004362 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 242231004363 23S rRNA binding site [nucleotide binding]; other site 242231004364 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 242231004365 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 242231004366 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 242231004367 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 242231004368 5S rRNA interface [nucleotide binding]; other site 242231004369 23S rRNA interface [nucleotide binding]; other site 242231004370 L5 interface [polypeptide binding]; other site 242231004371 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 242231004372 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 242231004373 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 242231004374 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 242231004375 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 242231004376 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 242231004377 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 242231004378 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 242231004379 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 242231004380 RNA binding site [nucleotide binding]; other site 242231004381 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 242231004382 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 242231004383 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 242231004384 23S rRNA interface [nucleotide binding]; other site 242231004385 putative translocon interaction site; other site 242231004386 signal recognition particle (SRP54) interaction site; other site 242231004387 L23 interface [polypeptide binding]; other site 242231004388 trigger factor interaction site; other site 242231004389 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 242231004390 23S rRNA interface [nucleotide binding]; other site 242231004391 5S rRNA interface [nucleotide binding]; other site 242231004392 putative antibiotic binding site [chemical binding]; other site 242231004393 L25 interface [polypeptide binding]; other site 242231004394 L27 interface [polypeptide binding]; other site 242231004395 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 242231004396 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 242231004397 G-X-X-G motif; other site 242231004398 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 242231004399 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 242231004400 putative translocon binding site; other site 242231004401 protein-rRNA interface [nucleotide binding]; other site 242231004402 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 242231004403 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 242231004404 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 242231004405 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 242231004406 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 242231004407 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 242231004408 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 242231004409 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 242231004410 elongation factor Tu; Reviewed; Region: PRK00049 242231004411 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 242231004412 G1 box; other site 242231004413 GEF interaction site [polypeptide binding]; other site 242231004414 GTP/Mg2+ binding site [chemical binding]; other site 242231004415 Switch I region; other site 242231004416 G2 box; other site 242231004417 G3 box; other site 242231004418 Switch II region; other site 242231004419 G4 box; other site 242231004420 G5 box; other site 242231004421 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 242231004422 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 242231004423 Antibiotic Binding Site [chemical binding]; other site 242231004424 elongation factor G; Reviewed; Region: PRK00007 242231004425 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 242231004426 G1 box; other site 242231004427 putative GEF interaction site [polypeptide binding]; other site 242231004428 GTP/Mg2+ binding site [chemical binding]; other site 242231004429 Switch I region; other site 242231004430 G2 box; other site 242231004431 G3 box; other site 242231004432 Switch II region; other site 242231004433 G4 box; other site 242231004434 G5 box; other site 242231004435 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 242231004436 Elongation Factor G, domain II; Region: EFG_II; pfam14492 242231004437 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 242231004438 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 242231004439 30S ribosomal protein S7; Validated; Region: PRK05302 242231004440 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 242231004441 S17 interaction site [polypeptide binding]; other site 242231004442 S8 interaction site; other site 242231004443 16S rRNA interaction site [nucleotide binding]; other site 242231004444 streptomycin interaction site [chemical binding]; other site 242231004445 23S rRNA interaction site [nucleotide binding]; other site 242231004446 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 242231004447 Protein of unknown function (DUF560); Region: DUF560; pfam04575 242231004448 Protein of unknown function (DUF560); Region: DUF560; pfam04575 242231004449 Lipoprotein GNA1870 C terminal like; Region: Lipoprot_C; pfam08794 242231004450 Largest subunit (beta') of bacterial DNA-dependent RNA polymerase (RNAP), N-terminal domain; Region: RNAP_beta'_N; cd01609 242231004451 beta and beta' interface [polypeptide binding]; other site 242231004452 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 242231004453 beta' and sigma factor interface [polypeptide binding]; other site 242231004454 Zn-binding [ion binding]; other site 242231004455 active site region [active] 242231004456 catalytic site [active] 242231004457 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 242231004458 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 242231004459 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 242231004460 DNA binding site [nucleotide binding] 242231004461 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 242231004462 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 242231004463 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 242231004464 RPB12 interaction site [polypeptide binding]; other site 242231004465 RPB1 interaction site [polypeptide binding]; other site 242231004466 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 242231004467 RPB10 interaction site [polypeptide binding]; other site 242231004468 RPB11 interaction site [polypeptide binding]; other site 242231004469 RPB3 interaction site [polypeptide binding]; other site 242231004470 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 242231004471 core dimer interface [polypeptide binding]; other site 242231004472 peripheral dimer interface [polypeptide binding]; other site 242231004473 L10 interface [polypeptide binding]; other site 242231004474 L11 interface [polypeptide binding]; other site 242231004475 putative EF-Tu interaction site [polypeptide binding]; other site 242231004476 putative EF-G interaction site [polypeptide binding]; other site 242231004477 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 242231004478 23S rRNA interface [nucleotide binding]; other site 242231004479 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 242231004480 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 242231004481 mRNA/rRNA interface [nucleotide binding]; other site 242231004482 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 242231004483 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 242231004484 23S rRNA interface [nucleotide binding]; other site 242231004485 L7/L12 interface [polypeptide binding]; other site 242231004486 putative thiostrepton binding site; other site 242231004487 L25 interface [polypeptide binding]; other site 242231004488 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 242231004489 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 242231004490 putative homodimer interface [polypeptide binding]; other site 242231004491 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 242231004492 heterodimer interface [polypeptide binding]; other site 242231004493 homodimer interface [polypeptide binding]; other site 242231004494 Preprotein translocase subunit SecE [Intracellular trafficking and secretion]; Region: SecE; COG0690 242231004495 elongation factor Tu; Reviewed; Region: PRK00049 242231004496 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 242231004497 G1 box; other site 242231004498 GEF interaction site [polypeptide binding]; other site 242231004499 GTP/Mg2+ binding site [chemical binding]; other site 242231004500 Switch I region; other site 242231004501 G2 box; other site 242231004502 G3 box; other site 242231004503 Switch II region; other site 242231004504 G4 box; other site 242231004505 G5 box; other site 242231004506 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 242231004507 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 242231004508 Antibiotic Binding Site [chemical binding]; other site 242231004509 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 242231004510 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 242231004511 S-adenosylmethionine binding site [chemical binding]; other site 242231004512 DNA topoisomerase I; Validated; Region: PRK06599 242231004513 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 242231004514 active site 242231004515 interdomain interaction site; other site 242231004516 putative metal-binding site [ion binding]; other site 242231004517 nucleotide binding site [chemical binding]; other site 242231004518 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 242231004519 domain I; other site 242231004520 DNA binding groove [nucleotide binding] 242231004521 phosphate binding site [ion binding]; other site 242231004522 domain II; other site 242231004523 domain III; other site 242231004524 nucleotide binding site [chemical binding]; other site 242231004525 catalytic site [active] 242231004526 domain IV; other site 242231004527 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 242231004528 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 242231004529 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 242231004530 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 242231004531 Protein of unknown function (DUF494); Region: DUF494; cl01103 242231004532 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 242231004533 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 242231004534 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 242231004535 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 242231004536 active site 242231004537 phosphorylation site [posttranslational modification] 242231004538 intermolecular recognition site; other site 242231004539 dimerization interface [polypeptide binding]; other site 242231004540 Sigma-54 interaction domain; Region: Sigma54_activ_2; pfam14532 242231004541 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 242231004542 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 242231004543 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 242231004544 dimerization interface [polypeptide binding]; other site 242231004545 PAS domain; Region: PAS; smart00091 242231004546 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 242231004547 dimer interface [polypeptide binding]; other site 242231004548 phosphorylation site [posttranslational modification] 242231004549 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 242231004550 ATP binding site [chemical binding]; other site 242231004551 Mg2+ binding site [ion binding]; other site 242231004552 G-X-G motif; other site 242231004553 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 242231004554 16S rRNA methyltransferase B; Provisional; Region: PRK10901 242231004555 NusB family; Region: NusB; pfam01029 242231004556 putative RNA binding site [nucleotide binding]; other site 242231004557 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 242231004558 S-adenosylmethionine binding site [chemical binding]; other site 242231004559 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 242231004560 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 242231004561 putative active site [active] 242231004562 substrate binding site [chemical binding]; other site 242231004563 putative cosubstrate binding site; other site 242231004564 catalytic site [active] 242231004565 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 242231004566 substrate binding site [chemical binding]; other site 242231004567 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 242231004568 active site 242231004569 catalytic residues [active] 242231004570 metal binding site [ion binding]; metal-binding site 242231004571 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 242231004572 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 242231004573 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 242231004574 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 242231004575 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 242231004576 Aspartate carbamoyltransferase, catalytic chain [Nucleotide transport and metabolism]; Region: PyrB; COG0540 242231004577 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 242231004578 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 242231004579 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 242231004580 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 242231004581 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 242231004582 Coenzyme A binding pocket [chemical binding]; other site 242231004583 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39G; cd02423 242231004584 putative active site [active] 242231004585 pyruvate kinase; Provisional; Region: PRK05826 242231004586 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 242231004587 domain interfaces; other site 242231004588 active site 242231004589 cyanate hydratase; Validated; Region: PRK02866 242231004590 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 242231004591 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 242231004592 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 242231004593 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; pfam02086 242231004594 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 242231004595 cofactor binding site; other site 242231004596 DNA binding site [nucleotide binding] 242231004597 substrate interaction site [chemical binding]; other site 242231004598 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 242231004599 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 242231004600 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 242231004601 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 242231004602 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 242231004603 RNA binding site [nucleotide binding]; other site 242231004604 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 242231004605 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 242231004606 NAD binding site [chemical binding]; other site 242231004607 homodimer interface [polypeptide binding]; other site 242231004608 active site 242231004609 substrate binding site [chemical binding]; other site 242231004610 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 242231004611 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 242231004612 NAD binding site [chemical binding]; other site 242231004613 substrate binding site [chemical binding]; other site 242231004614 homodimer interface [polypeptide binding]; other site 242231004615 active site 242231004616 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 242231004617 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 242231004618 substrate binding site; other site 242231004619 tetramer interface; other site 242231004620 Predicted membrane protein [Function unknown]; Region: COG1297 242231004621 chaperone protein DnaJ; Provisional; Region: PRK10767 242231004622 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 242231004623 HSP70 interaction site [polypeptide binding]; other site 242231004624 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 242231004625 substrate binding site [polypeptide binding]; other site 242231004626 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 242231004627 Zn binding sites [ion binding]; other site 242231004628 dimer interface [polypeptide binding]; other site 242231004629 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 242231004630 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 242231004631 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 242231004632 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 242231004633 Pyrroline-5-carboxylate reductase dimerization; Region: P5CR_dimer; pfam14748 242231004634 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 242231004635 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 242231004636 catalytic residue [active] 242231004637 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 242231004638 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 242231004639 Walker A motif; other site 242231004640 ATP binding site [chemical binding]; other site 242231004641 Walker B motif; other site 242231004642 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 242231004643 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 242231004644 Walker A motif; other site 242231004645 ATP binding site [chemical binding]; other site 242231004646 Walker B motif; other site 242231004647 TIGR01666 family membrane protein; Region: YCCS 242231004648 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 242231004649 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 242231004650 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 242231004651 GIY-YIG motif/motif A; other site 242231004652 putative active site [active] 242231004653 putative metal binding site [ion binding]; other site 242231004654 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG0362 242231004655 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 242231004656 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 242231004657 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 242231004658 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 242231004659 Glycosyl transferases group 1; Region: Glycos_transf_1; cl19138 242231004660 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3399 242231004661 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 242231004662 EPSP synthase (3-phosphoshikimate 1-carboxyvinyltransferase); Region: EPSP_synthase; pfam00275 242231004663 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 242231004664 hinge; other site 242231004665 active site 242231004666 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 242231004667 substrate binding site [chemical binding]; other site 242231004668 hinge regions; other site 242231004669 ADP binding site [chemical binding]; other site 242231004670 catalytic site [active] 242231004671 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 242231004672 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 242231004673 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 242231004674 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 242231004675 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 242231004676 Walker A/P-loop; other site 242231004677 ATP binding site [chemical binding]; other site 242231004678 Q-loop/lid; other site 242231004679 ABC transporter signature motif; other site 242231004680 Walker B; other site 242231004681 D-loop; other site 242231004682 H-loop/switch region; other site 242231004683 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 242231004684 catalytic residues [active] 242231004685 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 242231004686 catalytic residues [active] 242231004687 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 242231004688 putative active site [active] 242231004689 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 242231004690 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 242231004691 active site 242231004692 HIGH motif; other site 242231004693 KMSKS motif; other site 242231004694 AAA domain; Region: AAA_13; pfam13166 242231004695 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 242231004696 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 242231004697 Coenzyme A binding pocket [chemical binding]; other site 242231004698 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 242231004699 MutS domain I; Region: MutS_I; pfam01624 242231004700 MutS domain II; Region: MutS_II; pfam05188 242231004701 MutS domain III; Region: MutS_III; pfam05192 242231004702 MutS domain V; Region: MutS_V; pfam00488 242231004703 Walker A/P-loop; other site 242231004704 ATP binding site [chemical binding]; other site 242231004705 Q-loop/lid; other site 242231004706 ABC transporter signature motif; other site 242231004707 Walker B; other site 242231004708 D-loop; other site 242231004709 H-loop/switch region; other site 242231004710 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 242231004711 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 242231004712 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 242231004713 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 242231004714 homodimer interaction site [polypeptide binding]; other site 242231004715 cofactor binding site; other site 242231004716 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 242231004717 catalytic triad [active] 242231004718 metal binding site [ion binding]; metal-binding site 242231004719 conserved cis-peptide bond; other site 242231004720 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 242231004721 putative active site [active] 242231004722 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 242231004723 Ligand binding site [chemical binding]; other site 242231004724 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 242231004725 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 242231004726 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 242231004727 Domain of unknown function (DUF4298); Region: DUF4298; pfam14131 242231004728 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 242231004729 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 242231004730 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 242231004731 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 242231004732 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 242231004733 Putative zinc-finger; Region: zf-HC2; pfam13490 242231004734 RNA polymerase sigma factor; Provisional; Region: PRK12532 242231004735 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 242231004736 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 242231004737 DNA binding residues [nucleotide binding] 242231004738 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3219 242231004739 Protein of unknown function (DUF692); Region: DUF692; pfam05114 242231004740 Uncharacterized low-complexity protein [Function unknown]; Region: COG3767 242231004741 Predicted membrane protein [Function unknown]; Region: COG2259 242231004742 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 242231004743 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 242231004744 active site 242231004745 nucleophile elbow; other site 242231004746 peptide chain release factor 2; Validated; Region: prfB; PRK00578 242231004747 This domain is found in peptide chain release factors; Region: PCRF; smart00937 242231004748 RF-1 domain; Region: RF-1; pfam00472 242231004749 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 242231004750 amino acid/peptide transporter (Peptide:H+ symporter), bacterial; Region: yjdL_sub1_fam; TIGR00924 242231004751 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 242231004752 putative substrate translocation pore; other site 242231004753 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 242231004754 Family of unknown function (DUF490); Region: DUF490; pfam04357 242231004755 Family of unknown function (DUF490); Region: DUF490; pfam04357 242231004756 Family of unknown function (DUF490); Region: DUF490; pfam04357 242231004757 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 242231004758 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 242231004759 Surface antigen; Region: Bac_surface_Ag; pfam01103 242231004760 serine/threonine transporter SstT; Provisional; Region: PRK13628 242231004761 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 242231004762 hydroxyglutarate oxidase; Provisional; Region: PRK11728; cl19156 242231004763 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl17341 242231004764 argininosuccinate synthase; Validated; Region: PRK05370 242231004765 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 242231004766 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 242231004767 putative MPT binding site; other site 242231004768 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 242231004769 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 242231004770 tandem repeat interface [polypeptide binding]; other site 242231004771 oligomer interface [polypeptide binding]; other site 242231004772 active site residues [active] 242231004773 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 242231004774 Immunity protein 47; Region: Imm47; pfam15586 242231004775 Immunity protein 47; Region: Imm47; pfam15586 242231004776 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 242231004777 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 242231004778 putative nucleotide binding site [chemical binding]; other site 242231004779 uridine monophosphate binding site [chemical binding]; other site 242231004780 homohexameric interface [polypeptide binding]; other site 242231004781 elongation factor Ts; Provisional; Region: tsf; PRK09377 242231004782 UBA/TS-N domain; Region: UBA; pfam00627 242231004783 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 242231004784 rRNA interaction site [nucleotide binding]; other site 242231004785 S8 interaction site; other site 242231004786 putative laminin-1 binding site; other site 242231004787 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 242231004788 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 242231004789 Predicted dehydrogenase [General function prediction only]; Region: COG0579 242231004790 hydroxyglutarate oxidase; Provisional; Region: PRK11728; cl19156 242231004791 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 242231004792 non-specific DNA binding site [nucleotide binding]; other site 242231004793 salt bridge; other site 242231004794 sequence-specific DNA binding site [nucleotide binding]; other site 242231004795 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 242231004796 active site 242231004797 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04537 242231004798 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 242231004799 BON domain; Region: BON; pfam04972 242231004800 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 242231004801 dimer interface [polypeptide binding]; other site 242231004802 active site 242231004803 Predicted endonuclease distantly related to archaeal Holliday junction resolvase [DNA replication, recombination, and repair]; Region: COG0792 242231004804 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 242231004805 putative SAM binding site [chemical binding]; other site 242231004806 putative homodimer interface [polypeptide binding]; other site 242231004807 GTPase CgtA; Reviewed; Region: obgE; PRK12299 242231004808 GTP1/OBG; Region: GTP1_OBG; pfam01018 242231004809 Obg GTPase; Region: Obg; cd01898 242231004810 G1 box; other site 242231004811 GTP/Mg2+ binding site [chemical binding]; other site 242231004812 Switch I region; other site 242231004813 G2 box; other site 242231004814 G3 box; other site 242231004815 Switch II region; other site 242231004816 G4 box; other site 242231004817 G5 box; other site 242231004818 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 242231004819 cofactor binding site; other site 242231004820 DNA binding site [nucleotide binding] 242231004821 substrate interaction site [chemical binding]; other site 242231004822 HaeII restriction endonuclease; Region: RE_HaeII; pfam09554 242231004823 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 242231004824 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 242231004825 active site 242231004826 HIGH motif; other site 242231004827 KMSKS motif; other site 242231004828 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 242231004829 tRNA binding surface [nucleotide binding]; other site 242231004830 anticodon binding site; other site 242231004831 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 242231004832 putative active site [active] 242231004833 putative catalytic site [active] 242231004834 putative DNA binding site [nucleotide binding]; other site 242231004835 putative phosphate binding site [ion binding]; other site 242231004836 metal binding site A [ion binding]; metal-binding site 242231004837 putative AP binding site [nucleotide binding]; other site 242231004838 putative metal binding site B [ion binding]; other site 242231004839 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 242231004840 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; pfam01118 242231004841 Semialdehyde dehydrogenase, dimerization domain; Region: Semialdhyde_dhC; pfam02774 242231004842 RDD family; Region: RDD; pfam06271 242231004843 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 242231004844 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 242231004845 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 242231004846 homodimer interface [polypeptide binding]; other site 242231004847 NADP binding site [chemical binding]; other site 242231004848 substrate binding site [chemical binding]; other site 242231004849 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 242231004850 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 242231004851 active site 242231004852 HIGH motif; other site 242231004853 nucleotide binding site [chemical binding]; other site 242231004854 bifunctional biotin--[acetyl-CoA-carboxylase] ligase/pantothenate kinase; Reviewed; Region: PRK13325 242231004855 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 242231004856 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 242231004857 Pantothenate kinase type III (Bvg accessory factor family protein) [Transcription]; Region: COG1521 242231004858 Sporulation related domain; Region: SPOR; pfam05036 242231004859 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 242231004860 ThiS interaction site; other site 242231004861 putative active site [active] 242231004862 tetramer interface [polypeptide binding]; other site 242231004863 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 242231004864 thiS-thiF/thiG interaction site; other site 242231004865 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 242231004866 thiamine phosphate binding site [chemical binding]; other site 242231004867 active site 242231004868 pyrophosphate binding site [ion binding]; other site 242231004869 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 242231004870 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 242231004871 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 242231004872 putative hydroxymethylpyrimidine transporter CytX; Region: thia_cytX; TIGR02358 242231004873 Na binding site [ion binding]; other site 242231004874 Putative modulator of DNA gyrase; Region: PmbA_TldD; cl19356 242231004875 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 242231004876 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 242231004877 dimer interface [polypeptide binding]; other site 242231004878 conserved gate region; other site 242231004879 putative PBP binding loops; other site 242231004880 ABC-ATPase subunit interface; other site 242231004881 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 242231004882 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 242231004883 dimer interface [polypeptide binding]; other site 242231004884 conserved gate region; other site 242231004885 putative PBP binding loops; other site 242231004886 ABC-ATPase subunit interface; other site 242231004887 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 242231004888 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 242231004889 Walker A/P-loop; other site 242231004890 ATP binding site [chemical binding]; other site 242231004891 Q-loop/lid; other site 242231004892 ABC transporter signature motif; other site 242231004893 Walker B; other site 242231004894 D-loop; other site 242231004895 H-loop/switch region; other site 242231004896 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 242231004897 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 242231004898 substrate binding pocket [chemical binding]; other site 242231004899 membrane-bound complex binding site; other site 242231004900 hinge residues; other site 242231004901 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 242231004902 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 242231004903 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 242231004904 S-adenosylmethionine binding site [chemical binding]; other site 242231004905 Predicted permease [General function prediction only]; Region: COG2056 242231004906 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 242231004907 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 242231004908 hypothetical protein; Provisional; Region: PRK04325 242231004909 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 242231004910 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 242231004911 ATP binding site [chemical binding]; other site 242231004912 substrate interface [chemical binding]; other site 242231004913 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 242231004914 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 242231004915 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 242231004916 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 242231004917 rod shape-determining protein MreC; Region: MreC; cl19252 242231004918 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 242231004919 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 242231004920 23S rRNA interface [nucleotide binding]; other site 242231004921 L3 interface [polypeptide binding]; other site 242231004922 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 242231004923 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 242231004924 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 242231004925 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 242231004926 putative dimerization interface [polypeptide binding]; other site 242231004927 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 242231004928 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 242231004929 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 242231004930 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 242231004931 [2Fe-2S] cluster binding site [ion binding]; other site 242231004932 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 242231004933 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 242231004934 Qi binding site; other site 242231004935 intrachain domain interface; other site 242231004936 interchain domain interface [polypeptide binding]; other site 242231004937 heme bH binding site [chemical binding]; other site 242231004938 heme bL binding site [chemical binding]; other site 242231004939 Qo binding site; other site 242231004940 interchain domain interface [polypeptide binding]; other site 242231004941 intrachain domain interface; other site 242231004942 Qi binding site; other site 242231004943 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 242231004944 Qo binding site; other site 242231004945 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 242231004946 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 242231004947 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 242231004948 RmuC family; Region: RmuC; pfam02646 242231004949 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 242231004950 DNA ligase; Provisional; Region: PRK09125 242231004951 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 242231004952 DNA binding site [nucleotide binding] 242231004953 active site 242231004954 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of kDNA ligase-like ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_kDNA_ligase_like; cd08041 242231004955 DNA binding site [nucleotide binding] 242231004956 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 242231004957 active site 242231004958 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 242231004959 active pocket/dimerization site; other site 242231004960 active site 242231004961 phosphorylation site [posttranslational modification] 242231004962 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 242231004963 dimerization domain swap beta strand [polypeptide binding]; other site 242231004964 regulatory protein interface [polypeptide binding]; other site 242231004965 active site 242231004966 regulatory phosphorylation site [posttranslational modification]; other site 242231004967 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 242231004968 PEP-utilizing enzyme, N-terminal; Region: PEP-utilizers_N; pfam05524 242231004969 PEP-utilizing enzyme, mobile domain; Region: PEP-utilizers; pfam00391 242231004970 PEP-utilizing enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 242231004971 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 242231004972 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 242231004973 Walker A/P-loop; other site 242231004974 ATP binding site [chemical binding]; other site 242231004975 Q-loop/lid; other site 242231004976 ABC transporter signature motif; other site 242231004977 Walker B; other site 242231004978 D-loop; other site 242231004979 H-loop/switch region; other site 242231004980 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belong to this superfamily requires a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_hydrolase_3; cd03676 242231004981 nudix motif; other site 242231004982 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 242231004983 ThiC-associated domain; Region: ThiC-associated; pfam13667 242231004984 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 242231004985 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 242231004986 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 242231004987 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 242231004988 active site 242231004989 HIGH motif; other site 242231004990 KMSKS motif; other site 242231004991 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 242231004992 tRNA binding surface [nucleotide binding]; other site 242231004993 anticodon binding site; other site 242231004994 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 242231004995 dimer interface [polypeptide binding]; other site 242231004996 putative tRNA-binding site [nucleotide binding]; other site 242231004997 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 242231004998 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 242231004999 glutaminase active site [active] 242231005000 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 242231005001 dimer interface [polypeptide binding]; other site 242231005002 active site 242231005003 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 242231005004 dimer interface [polypeptide binding]; other site 242231005005 active site 242231005006 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 242231005007 MltA specific insert domain; Region: MltA; smart00925 242231005008 3D domain; Region: 3D; pfam06725 242231005009 inactive ferrous ion transporter periplasmic protein EfeO; Provisional; Region: PRK10378 242231005010 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 242231005011 Imelysin; Region: Peptidase_M75; pfam09375 242231005012 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 242231005013 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 242231005014 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 242231005015 PhnA protein; Region: PhnA; pfam03831 242231005016 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 242231005017 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 242231005018 Substrate binding site; other site 242231005019 Mg++ binding site; other site 242231005020 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 242231005021 active site 242231005022 substrate binding site [chemical binding]; other site 242231005023 CoA binding site [chemical binding]; other site 242231005024 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 242231005025 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 242231005026 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 242231005027 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 242231005028 motif II; other site 242231005029 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 242231005030 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 242231005031 Mechanosensitive ion channel; Region: MS_channel; pfam00924 242231005032 Competence-damaged protein; Region: CinA; pfam02464 242231005033 trifunctional thioredoxin/methionine sulfoxide reductase A/B protein; Provisional; Region: PRK14018 242231005034 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 242231005035 catalytic residues [active] 242231005036 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 242231005037 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 242231005038 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cl19050 242231005039 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 242231005040 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 242231005041 SRP54-type protein, GTPase domain; Region: SRP54; pfam00448 242231005042 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; COG0774 242231005043 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 242231005044 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 242231005045 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 242231005046 putative acyl-acceptor binding pocket; other site 242231005047 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 242231005048 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 242231005049 active site 242231005050 motif I; other site 242231005051 motif II; other site 242231005052 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 242231005053 Sulfatase; Region: Sulfatase; cl19157 242231005054 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 242231005055 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 242231005056 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 242231005057 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 242231005058 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 242231005059 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 242231005060 S-adenosylmethionine binding site [chemical binding]; other site 242231005061 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 242231005062 Phosphotransferase enzyme family; Region: APH; pfam01636 242231005063 putative active site [active] 242231005064 putative substrate binding site [chemical binding]; other site 242231005065 ATP binding site [chemical binding]; other site 242231005066 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 242231005067 ATP-binding site [chemical binding]; other site 242231005068 Gluconate-6-phosphate binding site [chemical binding]; other site 242231005069 fructuronate transporter; Provisional; Region: PRK10034; cl15264 242231005070 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 242231005071 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 242231005072 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 242231005073 dimer interface [polypeptide binding]; other site 242231005074 conserved gate region; other site 242231005075 putative PBP binding loops; other site 242231005076 ABC-ATPase subunit interface; other site 242231005077 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 242231005078 dimer interface [polypeptide binding]; other site 242231005079 ABC-ATPase subunit interface; other site 242231005080 putative PBP binding loops; other site 242231005081 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeD; cd03379 242231005082 active site clefts [active] 242231005083 zinc binding site [ion binding]; other site 242231005084 dimer interface [polypeptide binding]; other site 242231005085 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 242231005086 active site 242231005087 (T/H)XGH motif; other site 242231005088 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 242231005089 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 242231005090 oxidative damage protection protein; Provisional; Region: PRK05408 242231005091 YccA-like proteins; Region: YccA_like; cd10433 242231005092 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 242231005093 active site 242231005094 (T/H)XGH motif; other site 242231005095 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 242231005096 trimer interface [polypeptide binding]; other site 242231005097 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 242231005098 trimer interface [polypeptide binding]; other site 242231005099 Coiled stalk of trimeric autotransporter adhesin; Region: YadA_stalk; pfam05662 242231005100 YadA-like C-terminal region; Region: YadA_anchor; pfam03895 242231005101 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 242231005102 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 242231005103 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 242231005104 Walker A/P-loop; other site 242231005105 ATP binding site [chemical binding]; other site 242231005106 Q-loop/lid; other site 242231005107 ABC transporter signature motif; other site 242231005108 Walker B; other site 242231005109 D-loop; other site 242231005110 H-loop/switch region; other site 242231005111 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 242231005112 ABC-type enterochelin transport system, permease component [Inorganic ion transport and metabolism]; Region: CeuC; COG4605 242231005113 ABC-ATPase subunit interface; other site 242231005114 dimer interface [polypeptide binding]; other site 242231005115 putative PBP binding regions; other site 242231005116 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 242231005117 ABC-ATPase subunit interface; other site 242231005118 dimer interface [polypeptide binding]; other site 242231005119 putative PBP binding regions; other site 242231005120 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 242231005121 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 242231005122 putative ligand binding residues [chemical binding]; other site 242231005123 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 242231005124 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 242231005125 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 242231005126 oligomerisation interface [polypeptide binding]; other site 242231005127 mobile loop; other site 242231005128 roof hairpin; other site 242231005129 chaperonin GroEL; Reviewed; Region: groEL; PRK12850 242231005130 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 242231005131 ring oligomerisation interface [polypeptide binding]; other site 242231005132 ATP/Mg binding site [chemical binding]; other site 242231005133 stacking interactions; other site 242231005134 hinge regions; other site 242231005135 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 242231005136 Na2 binding site [ion binding]; other site 242231005137 putative substrate binding site 1 [chemical binding]; other site 242231005138 Na binding site 1 [ion binding]; other site 242231005139 putative substrate binding site 2 [chemical binding]; other site 242231005140 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 242231005141 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 242231005142 diaminopimelate decarboxylase; Region: lysA; TIGR01048 242231005143 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 242231005144 active site 242231005145 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 242231005146 substrate binding site [chemical binding]; other site 242231005147 catalytic residues [active] 242231005148 dimer interface [polypeptide binding]; other site 242231005149 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate...; Region: Frataxin; cd00503 242231005150 putative iron binding site [ion binding]; other site 242231005151 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4316 242231005152 S-ribosylhomocysteinase; Provisional; Region: PRK02260 242231005153 DNA polymerase I; Provisional; Region: PRK05755 242231005154 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 242231005155 active site 242231005156 metal binding site 1 [ion binding]; metal-binding site 242231005157 putative 5' ssDNA interaction site; other site 242231005158 metal binding site 3; metal-binding site 242231005159 metal binding site 2 [ion binding]; metal-binding site 242231005160 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 242231005161 putative DNA binding site [nucleotide binding]; other site 242231005162 putative metal binding site [ion binding]; other site 242231005163 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 242231005164 active site 242231005165 catalytic site [active] 242231005166 substrate binding site [chemical binding]; other site 242231005167 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 242231005168 active site 242231005169 DNA binding site [nucleotide binding] 242231005170 catalytic site [active] 242231005171 Fic/DOC family; Region: Fic; pfam02661 242231005172 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 242231005173 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases; Region: PL1_Passenger_AT; cd01343 242231005174 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 242231005175 Autotransporter beta-domain; Region: Autotransporter; pfam03797 242231005176 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 242231005177 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 242231005178 trmE is a tRNA modification GTPase; Region: trmE; cd04164 242231005179 G1 box; other site 242231005180 GTP/Mg2+ binding site [chemical binding]; other site 242231005181 Switch I region; other site 242231005182 G2 box; other site 242231005183 Switch II region; other site 242231005184 G3 box; other site 242231005185 G4 box; other site 242231005186 G5 box; other site 242231005187 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 242231005188 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 242231005189 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 242231005190 N-terminal plug; other site 242231005191 ligand-binding site [chemical binding]; other site 242231005192 Protein of unknown function (DUF560); Region: DUF560; pfam04575 242231005193 aminodeoxychorismate synthase; Provisional; Region: PRK07508 242231005194 chorismate binding enzyme; Region: Chorismate_bind; cl10555 242231005195 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 242231005196 homodimer interface [polypeptide binding]; other site 242231005197 substrate-cofactor binding pocket; other site 242231005198 pyridoxal 5'-phosphate binding site [chemical binding]; other site 242231005199 catalytic residue [active] 242231005200 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 242231005201 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 242231005202 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 242231005203 Walker A/P-loop; other site 242231005204 ATP binding site [chemical binding]; other site 242231005205 Q-loop/lid; other site 242231005206 ABC transporter signature motif; other site 242231005207 Walker B; other site 242231005208 D-loop; other site 242231005209 H-loop/switch region; other site 242231005210 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 242231005211 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 242231005212 mce related protein; Region: MCE; pfam02470 242231005213 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; COG2854 242231005214 Predicted NTP binding protein (contains STAS domain) [General function prediction only]; Region: COG3113 242231005215 Surface lipoprotein [Cell envelope biogenesis, outer membrane]; Region: VacJ; COG2853 242231005216 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 242231005217 active site 242231005218 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 242231005219 catalytic residues [active] 242231005220 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 242231005221 Bacterial transferase hexapeptide (six repeats); Region: Hexapep; pfam00132 242231005222 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 242231005223 trimer interface [polypeptide binding]; other site 242231005224 active site 242231005225 substrate binding site [chemical binding]; other site 242231005226 CoA binding site [chemical binding]; other site 242231005227 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 242231005228 Predicted permease, cadmium resistance protein [Inorganic ion transport and metabolism]; Region: CadD; COG4300 242231005229 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 242231005230 stringent starvation protein A; Provisional; Region: sspA; PRK09481 242231005231 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 242231005232 C-terminal domain interface [polypeptide binding]; other site 242231005233 putative GSH binding site (G-site) [chemical binding]; other site 242231005234 dimer interface [polypeptide binding]; other site 242231005235 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 242231005236 dimer interface [polypeptide binding]; other site 242231005237 N-terminal domain interface [polypeptide binding]; other site 242231005238 Stringent starvation protein B [General function prediction only]; Region: SspB; COG2969 242231005239 Uncharacterized conserved protein [Function unknown]; Region: COG1610 242231005240 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 242231005241 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 242231005242 Soluble lytic murein transglycosylase L domain; Region: SLT_L; pfam14718 242231005243 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 242231005244 N-acetyl-D-glucosamine binding site [chemical binding]; other site 242231005245 catalytic residue [active] 242231005246 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 242231005247 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 242231005248 Walker A/P-loop; other site 242231005249 ATP binding site [chemical binding]; other site 242231005250 Q-loop/lid; other site 242231005251 ABC transporter signature motif; other site 242231005252 Walker B; other site 242231005253 D-loop; other site 242231005254 H-loop/switch region; other site 242231005255 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 242231005256 dimer interface [polypeptide binding]; other site 242231005257 conserved gate region; other site 242231005258 ABC-ATPase subunit interface; other site 242231005259 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 242231005260 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 242231005261 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 242231005262 ParB-like nuclease domain; Region: ParBc; pfam02195 242231005263 KorB domain; Region: KorB; pfam08535 242231005264 F0F1-type ATP synthase, subunit I [Energy production and conversion]; Region: AtpI; COG3312 242231005265 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 242231005266 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 242231005267 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 242231005268 F0F1 ATP synthase subunit B; Provisional; Region: PRK14471; cl17192 242231005269 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13429 242231005270 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 242231005271 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 242231005272 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 242231005273 beta subunit interaction interface [polypeptide binding]; other site 242231005274 Walker A motif; other site 242231005275 ATP binding site [chemical binding]; other site 242231005276 Walker B motif; other site 242231005277 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 242231005278 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 242231005279 core domain interface [polypeptide binding]; other site 242231005280 delta subunit interface [polypeptide binding]; other site 242231005281 epsilon subunit interface [polypeptide binding]; other site 242231005282 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 242231005283 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 242231005284 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 242231005285 alpha subunit interaction interface [polypeptide binding]; other site 242231005286 Walker A motif; other site 242231005287 ATP binding site [chemical binding]; other site 242231005288 Walker B motif; other site 242231005289 inhibitor binding site; inhibition site 242231005290 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 242231005291 ATP synthase, F1 epsilon subunit (delta in mitochondria); Region: ATP_synt_epsi; TIGR01216 242231005292 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 242231005293 gamma subunit interface [polypeptide binding]; other site 242231005294 epsilon subunit interface [polypeptide binding]; other site 242231005295 LBP interface [polypeptide binding]; other site 242231005296 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 242231005297 dimer interface [polypeptide binding]; other site 242231005298 motif 1; other site 242231005299 active site 242231005300 motif 2; other site 242231005301 motif 3; other site 242231005302 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 242231005303 Glycyl-tRNA synthetase beta subunit; Region: tRNA_synt_2f; pfam02092 242231005304 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 242231005305 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 242231005306 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 242231005307 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 242231005308 active site 242231005309 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 242231005310 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 242231005311 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1; Region: IMPase_like; cd01637 242231005312 active site 242231005313 hypothetical protein; Provisional; Region: PRK01752 242231005314 SEC-C motif; Region: SEC-C; cl19389 242231005315 SEC-C motif; Region: SEC-C; pfam02810 242231005316 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 242231005317 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 242231005318 NAD(P) binding site [chemical binding]; other site 242231005319 homotetramer interface [polypeptide binding]; other site 242231005320 homodimer interface [polypeptide binding]; other site 242231005321 active site 242231005322 GMP synthase; Reviewed; Region: guaA; PRK00074 242231005323 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 242231005324 AMP/PPi binding site [chemical binding]; other site 242231005325 candidate oxyanion hole; other site 242231005326 catalytic triad [active] 242231005327 potential glutamine specificity residues [chemical binding]; other site 242231005328 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 242231005329 ATP Binding subdomain [chemical binding]; other site 242231005330 Ligand Binding sites [chemical binding]; other site 242231005331 Dimerization subdomain; other site 242231005332 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 242231005333 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 242231005334 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 242231005335 Walker A/P-loop; other site 242231005336 ATP binding site [chemical binding]; other site 242231005337 Q-loop/lid; other site 242231005338 ABC transporter signature motif; other site 242231005339 Walker B; other site 242231005340 D-loop; other site 242231005341 H-loop/switch region; other site 242231005342 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 242231005343 Predicted membrane protein [Function unknown]; Region: COG3326 242231005344 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 242231005345 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 242231005346 dimer interface [polypeptide binding]; other site 242231005347 active site 242231005348 CoA binding pocket [chemical binding]; other site 242231005349 putative phosphate acyltransferase; Provisional; Region: PRK05331 242231005350 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 242231005351 active site 242231005352 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 242231005353 Predicted metal-binding, possibly nucleic acid-binding protein [General function prediction only]; Region: COG1399 242231005354 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 242231005355 active site 242231005356 dimer interface [polypeptide binding]; other site 242231005357 104 kDa microneme/rhoptry antigen; Provisional; Region: PTZ00449 242231005358 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 242231005359 putative SAM binding site [chemical binding]; other site 242231005360 homodimer interface [polypeptide binding]; other site 242231005361 membrane protein insertase; Provisional; Region: PRK01318 242231005362 YidC periplasmic domain; Region: YidC_periplas; pfam14849 242231005363 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 242231005364 hypothetical protein; Provisional; Region: PRK14373 242231005365 ribonuclease P; Reviewed; Region: rnpA; PRK04390 242231005366 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399